In the premiere episode, Don races to capture a serial rapist who has begun to murder his victims. Charlie is recruited by Don to help track the killer. He creates a mathematical equation to identify the killer’s point of origin by working back from the crime scene locations. Charlie’s obsession with the case leads him to seek the insight of his colleague, physicist Dr. Larry Fleinhardt. Meanwhile, their father, Alan, is pleased to see his sons working together but fears their competitive nature will lead to trouble.
After a series of bank robberies, Don recruits Charlie to help chart the next robbery location, only to overlook the thieves’ true motive.
When Don and his team attempt to catch a pair of repeat bank robbers in Los Angeles, Charlie devises an equation using probability and statistical analysis to pinpoint the location of their next robbery. Although his prediction for the next robbery is correct, his mathematical model turns out to be useless when the robber’s true motives are revealed. His frustration growing, Charlie’s desire to continue to help the FBI falters when a stake-out goes bad, leaving one agent dead and his brother, Don, with a gunshot wound.
Don relies on Charlie's mathematical insight to help stop a virus that has been killing innocent people in Los Angeles.
When people start mysteriously dying in Los Angeles, Don and his FBI team are called in by the Public Health Service to determine if it is an act of bio-terrorism. Using Charlie's knowledge of the mathematics of diseases, they attempt to track the virus not only to stop it, but to find the point of origin in order to determine who is responsible and why -- only to be surprised by the motive of the suspect. Meanwhile, Don is surprised to learn that Charlie has been keeping a secret from him.
Charlie convinces Don to investigate a student’s suicide in order to make sure that it was not murder.
After an engineering student at CalSci is found dead from an apparent suicide, Charlie convinces Don to launch an investigation after he reads the student’s thesis that asserted that the architecturally magnificent Cole Center in Los Angeles is structurally unstable. Although reluctant at first, Don and his FBI agents discover that the student’s findings were correct and uncover a dangerous and surprising conspiracy. Meanwhile, Alan prepares for a first date and convinces Don and Terry to join them, hoping they might rekindle their old romance.
Don needs Charlie's help to find out why the daughter of a mathematician is kidnapped.
When a 5-year-old girl is kidnapped from her birthday party, Don and Terry lead the investigation but must rely on Charlie's help, as the girl's father, Ethan, is also a mathematician. Charlie realizes the kidnapper's motive when Ethan reveals that he is close to solving Riemann's Hypothesis, a difficult math problem. If solved, the solution could not only earn him with $1 million but could break the code for Internet security, unlocking the world's biggest financial secret.
While investigating a deadly freight train accident, Don and Charlie discover a shocking culprit who is on a mission to diminish public confidence in the railroad system.
While consulting with the National Transportation Safety Board (NTSB) at the scene of the wreck, Don learns that this tragedy is one of a series of recreated accidents involving railroad negligence. As is the pattern with the previous train wrecks, an undecipherable numerical code is left at the site, which Don recruits Charlie to solve. By breaking the code, Charlie is able to establish that this accident was a recreation of a deadly wreck that left only one survivor several years ago. Don's investigation leads him and his team to a dangerous standoff with their suspect, who has surprising ties to the railway system.
After two teens are found murdered, the investigation leads Don and his team to uncover a dangerous counterfeit money ring.
Charlie is called in to use his mathematical expertise to pinpoint the location of the counterfeiters by analyzing the dispersion of the bogus money. In addition, he also discovers a surprising connection to the disappearance of a local artist. Meanwhile, Charlie realizes how little he knows about his brother when he meets someone from Don’s romantic past.
When new information on an old case comes to light, Don thinks he may have sent the wrong person to jail.
When a recent murder bears a strong resemblance to a murder case he closed a year ago, Don questions whether he sent the wrong man to jail. As a favor to Don, Charlie examines the old case and finds flaws in the fingerprint and eyewitness systems that put their reliability into question.
Don and his team must stop a sniper who goes on a killing spree in Los Angeles.
Pressed for time to find the sniper, Don calls in a senior Sniper Instructor from Quantico (guest star Lou Diamond Phillips) to assist on the case, causing Charlie to feel insecure about his role as special consultant to the FBI. Feeling animosity towards Agent Edgerton at first, Charlie learns from him that human behavior could make his mathematical equations useless. Instead Edgerton encourages Charlie to get inside the head of the killer.
Don must find the hijackers of a truck carrying nuclear waste before they detonate a dirty bomb in Los Angeles.
Don and his team are called when it is discovered that a truck driver and his big rig carrying radioactive material have been hijacked and are now missing. They are pressed for time to find the truck when the hijackers threaten to detonate a dirty bomb in an undisclosed location in Los Angeles if they don't receive $20 million in 12 hours.
Don and his FBI team are called in to solve the murder of a computer researcher and are surprised with what they find.
After an independent computer researcher with a contract with the Defense Department is found murdered, Don and his team are called in to find out who is responsible. After Don recruits Charlie to decode the murder victim's cryptic computer data, Charlie uncovers he was working on a secret and potentially damaging project, forcing Charlie to question the impact of his own life's work.
When a UFO is spotted dangerously close to Los Angeles, Don recruits Charlie to help locate the mysterious aircraft's point of origin and is surprised when it turns into a murder investigation.
Don and Agent Quimby of the NTSB investigate eyewitness accounts of a mysterious unidentified object flying dangerously close to downtown Los Angeles that has raised concern of a terrorist attack. After Charlie is recruited to help with the investigation, it is discovered that the flying object is part of a new technology that could revolutionize air travel. But the investigation takes a turn when they learn that the lead engineer is found murdered.
Don must find two violent felons who escape after their prison bus is in a car accident, on the first season finale of NUMB3RS.
As Don investigates the prison bus crash, Charlie uses of probability analysis to conclude that the bus crash was not an accident, but part of a conspiracy to free a dangerous killer. Now, Don and Charlie must discover the killer's lethal agenda and stop him before he is able to carry it out.
Don uses Charlie and Megan's expertise when the FBI is called to the scene of a federal judge's wife's murder, on the second season premiere.
Dylan Bruno stars as Colby Granger, a new Los Angeles FBI agent whose tour of duty with the Army's Criminal Investigation division allowed him the chance to see the world beyond Boise, Idaho where he grew up.
When a judge's wife is shot and killed, Don and his team look into the judge's cases to determine if one of his verdicts led to the murder. Using the judge's past rulings and Megan's expertise in profiling, Charlie creates a mathematical theory to identify the two most probable suspects from the case files. However, when the team discovers a link between the 2 suspects, the investigation goes in an unexpected direction.
Don and his team must find who is responsible for kidnapping the family of a jewelry store owner before they are killed.
A robbery at a jewelry store turns out to be a kidnapping when the store owner's wife and young daughter are abducted. But when Don and his team get deeper into the investigation, they discover that the heist may not have been a complete surprise to the owner. Meanwhile, Charlie and Amita have their first official date. They agree not to talk about work. Unfortunately, the date goes badly because they seem to have nothing else to discuss, leaving Charlie wondering what to do.
Don and his team search for the stalker of a pop princess which turns into a murder investigation of a paparazzo.
When an alleged stalker breaks into a famous pop singer’s house, Don and his team are brought in to lead the investigation. Using the fan letters she received as evidence, Don turns to Charlie, who uses Forensic Information System for Handwriting and discovers that there are two senders – one of them a copycat. The agents are thrown another curve when a celebrity photographer taking photos of the pop princess’ house is murdered, and they learn that the pop princess may not be so innocent.
Dr. Larry Fleinhardt acquires a 1931 Ford roadster, but is reluctant to drive it anywhere but on campus or to and from his nearby home.
Don and his team must solve the murder of a CFO of a large energy corporation who is found murdered on her doorstep and her young son is the only witness.
Don and Megan are called to a murder scene when the CFO of a powerful energy company, who was about to testify against fellow executives for stock fraud, is found dead at home with the only witness being her 11-year-old son. Knowing there could be thousands of disgruntled ex-employees, Don calls on Charlie to help narrow down the list of potential suspects, but is surprised when the investigation takes them in a different direction.
Don and his team find a suspicious code during a raid which Charlie determines is part of a secret plan to assassinate a Colombian exile living in Los Angeles.
Along with David Sinclair and new FBI Agent Colby Granger, Don discovers a secret code during a raid and enlists Charlie's help to crack it. Using an elaborate game theory model called "hide and seek," Charlie discovers that it is a plan for the assassination of a Columbian exile living in Los Angeles. Charlie and Megan combine their expertise and work closely together to try to prevent the murder from taking place.
Don and his agents must uncover who interfered with a counter-terrorism exercise before deadly results occur.
A week-long series of counter-terrorism exercises are put to the test by Homeland Security in Los Angeles, but when the first one is violated by someone who releases a potentially lethal gas in the subway system, Don and his team are called in to find the culprit. Further investigation leads them to an unlikely suspect trying to prove a point about the city's lack of preparedness.
When a father is killed in a home robbery, Don and his team investigate the connection between several recent robberies in the upscale community.
When the number of violent home invasions in an upscale neighborhood begins to escalate, Don and his agents are called in after it is discovered that the victims are being tracked through the GPS in their cell phones. To help solve the case, Charlie applies a data-mining procedure to find a link between the robberies and uncovers a connection between the victim's insurance and wireless companies which exposes a much larger operation. Meanwhile, a rival mathematician, Marshall Penfield, challenges one of Charlie's mathematical findings which makes Charlie question whether he is spending too much time working with the FBI and not enough time making strides in his own field.
A routine drug bust unveils a sensitive issue which Charlie takes to heart.
Megan and a team of FBI agents bust a major methamphetamine lab, but lose the kingpin when he sets off a bomb and escapes, killing one of the agents under Megan's command. But when Charlie gets his hands on a computer hard drive left behind, he uncovers a disturbing photo and, against Don's wishes, pursues its origin.
When several people in Los Angeles suffer from seizures as a result of product tampering of over-the-counter medications, Don and his team discover that a former chemist from a large pharmaceutical company is to blame. While tracing the culprit to the Sibley mountains, the team meets up with Special Agent Edgerton (Lou Diamond Phillips), who is tracking a cattle rancher-turned-federal fugitive for selling tainted beef and killing a U.S. Marshall. Megan figures out that their meeting isn't random, as the two fugitives have something in common.
In the lab of the Heritage Museum , Jennifer Abernathy is working on some Native-American artifact. Once her work is done, she gathers her things and exits but doesn't make it outside as someone grabs her. Don and his team are brought to the scene to investigate who killed the woman and why. Alan has problems letting go of the past. Amita and Larry give Charlie advice on his father's problem.
Charlie helps Don and his team to find an arsonist who has set four fires so far with Molotov cocktails. Along with LAFD Arson Investigator Noah Stevens, the team will investigate the fire of an SUV that caused the death of a man.
When Don and his team are called to the murder scene of a Los Angeles gang member, they learn that it is a fellow agent who had been working undercover. Without exposing the agent's cover, Don must investigate his murder by a rival gang and try to crack the gangs' leadership and territories to find the suspect. But the agents are surprised when they learn who is responsible for the source of the rivalry.
A Russian 20-year-old man is killed after he played and won at Blackjack at a L.A. Card Club. There were four robberies reported at this club in the past six months. Don requires his brother's help when they find books with equations in the dead man's bag. Larry will find the equations a tad too familiar for his taste, which will lead him to helping Charlie and the FBI more than he usually does.
A teenager, from the same part of India where Amita is from, is discovered in the basement of an old downtown hotel. It is believed she was being tortured. It is discovered that the girl and three others were victims of black market organ-harvesting.
A DNA synthesizer that has the capability of customizing diseases, is stolen from the campus where Charlie teaches. Don fears the thieves may be terrorists out to start or advance a bio-warfare program. He also believes the theft was an inside job and the chief suspect is one of Larry's top students. Back at home, Charlie discovers that his late mother was once a gifted musician.
A bomb placed under a government car parked near a U.S. Army Recruitment Office explodes killing a man and leaving his wife in shock. Don and his team try to stop the bomb makers before more antiwar protests kill more civilians.
Don has to contend with a retired FBI agent who investigated a similar bombing 35 years earlier. The retired agent insists the culprit is an activist that Alan Eppes knew in the 1960s who has been missing since. The retired agent's "old school" style clashes dramatically with the way Don runs his FBI team.
A psychic called a search team and tipped them off about a location in the middle of nowhere where a crime has been committed. When the search team arrives there, they find a crime scene. Don and his team are called in. Charlie and the psychic will collide as one is all about facts and science and the other is not.
While talking on her cellphone, a woman named Saida is taken and killed the day before she had an important interview. Saida was an Iraqi citizen in the states to make a documentary. She was an activist who received death threats. Don and his team work with Agent Kareem Allawi. Charlie has dinner with Susan Berry an old friend who is in town for a book signing. Both of them seem to have a liking for one another.
As Don and his team investigate the motive behind two students' deadly school shooting, Charlie uses the school's radio frequency identification system to track the shooters' movements through the school's hallways. But when Charlie notices an abnormal pattern, Don and his agents reevaluate the evidence and discover an unlikely third participant. Larry asks Megan to dinner at an Ethiopian restaurant for their first date.
When an ATF agent is found dead amid questionable circumstances, Don demands to take on the case, which revolves around an elaborate bank heist, after he learns the victim is his ex-girlfriend. As the pressure of his job mounts, Don recognizes the impact his professional life has on his personal life and he decides to investigate his flirtation with AUSA Robin Brooks.
After an unknown man opens fire in the FBI offices, Don and his team must investigate his motive and his connection to a dangerous arms dealer who is on trial. After almost getting shot, Charlie is visibly shaken and reluctant to return to the offices, hindering his contribution in the case.
An FBI investigation into a computer hacking scam, which taps into a bank's system to gain access to customer's identities and financial assets, becomes personal for Don when the Russian mob spearheading it comes after him and threatens the safety of Charlie and Alan.
Don enlists Charlie's help when the bodies of five young Asian girls found washed up are suspected of being infected with the Avian influenza virus.
To prevent the potential spread of the Avian flu, Don puts a rush on the investigation, which takes a surprising turn when David and Colby discover a clue on one of the girls' bodies. Meanwhile, Amita considers a move to Harvard University, which causes Charlie to re-evaluate his feelings for her.
The details surrounding a young woman's death suggests to Don and his team that she could have been murdered by a serial killer. Upon further investigation, they uncover disturbing evidence that incriminates their suspect but also puts Don's life in danger. Meanwhile, Charlie dreams about his late mother, which causes him to regret his introverted behavior when she was dying.
David interrogates Billy Rivers, one of Crystal Hoyt's ex-boyrfriend and someone she was looking for. When Billy is not cooperating as they would like, the team digs up some dirt on his attorney. The team must work harder and faster when one of theirs is taken by Crystal.
Meanwhile, Alan contemplates getting his own place and moving out of the family homestead. Amita eschews the position at Harvard and accepts one at CalSci.
The FBI faces a stand off with Crystal who refuses to let Megan go unless the FBI releases her boyfriend in exchange. During the wait, however, Megan manages to get Crystal to open up about her motive, which triggers a violent reaction and puts Megan in even more danger. Don wrestles with his conscience about decisions he made in an effort to rescue Megan.
Charlie and Amita decide to give romance a second chance, now that Amita is remaining at CalSci. Alan decides to stay put for the time being as he thinks he'll miss Charlie and Don. Larry feels guilty at not preventing Megan's ordeal.
A very valuable painting on loan from a private collector is stolen from a small museum desipte stringent security measures. At first it seems to be a simple theft or insurance scam. As Charlie begins to research the provenance of the painting, he discovers that it was stolen by the Nazi's during the Holocaust, causing Don to refocus his approach to the case. Alan and Charlie are at odds over household chores and maintenance.
As Charlie's mathematical analysis reveals that the victim's death was no mere accident, Don grapples with the possibility of a leak in the Department of Justice. Meanwhile, Colby is caught trying to protect his old military buddy who has come under suspicion in the case, causing Don to question Colby's loyalty. Charlie is miffed at Larry because Larry chose another mathematician to collaborate on a paper he published.
When a father driving with his two children is gunned down on the freeway, Megan is puzzled when she can't find a specific pattern to the suspect's behavior and goes to Charlie for some insight. But as additional freeway incidents occur, Don uncovers an unlikely clue that may lead them to the killer. Amita seeks Larry's advice on making the transition from graduate student to faculty member. Charlie becomes concerned when he learns that Larry has been sleeping on his couch and living in his office.
When Don and his team investigate a murder at a horse track, they stumble onto more than just a plot of betting on fixed races. As Charlie digs deeper into the victim's life and discovers an elaborate gambling scheme, he realizes he has only uncovered part of the crime. Soon, he discovers a connection to a third party sending the case in a whole other direction. Larry becomes increasingly distracted by the lack of structure in his relationship with Megan.
When a series of blackouts occur in power stations leaving large areas of Los Angeles in the dark, Don and his team must determine if the blackouts are accidental or the work of terrorists. In a surprising development, the blackouts are related to a complicated scheme concerning a previous case.
After some probing into the case, Charlie is astonished when he discovers Oswald Kitner, a fantasy league player who has developed an extraordinary statistical analysis that identifies which players use steroids. This unforeseen breakthrough leads the FBI to a possible motive and potential killer. Unfortunately, someone does not want the pioneering statistical methods to see the light of day, putting Oswald and Charlie in danger.
Don and his team investigate a trail of illegal waste disposal after a sinkhole, which collapses in a school playground, kills an elderly woman and injures several children.
This episode introduces Kathy Najimy as Dr. Mildred Finch, Charlie Eppes' new department chair. At her welcoming reception, Dr. Finch immediately hits it off with Charlie's father, Alan. She then proceed to irritate Charlie, Amita, and Larry by assigning them additional academic committee obligations.
Senator Martin Tallman and a local psychiatrist have one thing in common -- they both are found murdered during Don's shift. Though both of the murders took place in very different circumstances, they might have more in common than everyone initially thinks. Following a hunch, Don pursues the case as if the two murders are related, and in doing so he stumbles across a secret that has been covered up by the government for several years.
Dr. Fleinhardt finds out that his rival has declined to go to the International Space Station due to other obligations, so that he will be taking his place. Charlie has difficulty accepting that his friend and colleague will be gone for months.
Don hunts for a serial killer after a man is found tied up and beaten to death in an unoccupied house that is for sale, the third such murder to occur in six weeks. The investigation reveals that all three victims may have met their killer through Internet chat rooms and were lured to the houses with the promise of having sex with an underage girl. Also, Larry learns that he may be pulled from NASA's space mission because of his recent bizarre behavior.
When a teenage girl is found almost beaten to death, Don and his team discover that she escaped from a polygamous cult headed by a fundamentalist leader who is on the run from the FBI. They discover that the girl's mother, who is also a religious zealot, "gave" her daughter to the leader. As their contribution to the investigation, Charlie and Amita try to decipher a chart that was found at the leader's last known location, hoping it will lead them to him. Millie provides them with a surprising answer.
When Charlie and Amita return prematurely from a math conference to work the investigation, they find Alan and Millie sharing a bottle of wine in the Eppes homestead.
The FBI asks Charlie to retrace the path of a marine salvage barge because Don suspects a murder took place on board. However, Charlie is put in a difficult situation when the National Security Agency (NSA) also requests his help to find the yacht for the confidential case they are working on. Meanwhile, Liz and Don try to figure out a way to make their personal relationship work after she is permanently transferred to LA.
Meanwhile, Alan and Millie's relationship continues to develop. Millie prepares to challenge Alan at chess.
Don and his team investigate a rash of deadly restaurant robberies. During the investigation, the FBI discovers that the thieves steal the restaurant customer's credit cards so that they can run up charges at a fake Internet store and then route the money to offshore accounts. Charlie tries to pinpoint where the money is being laundered to prevent more restaurants from being hit. Meanwhile, in the wake of the Crystal Hoyle shooting, the FBI forces Don to talk to William Bradford, an occupational psychologist and FBI consultant whose specialty is trauma recovery.
Back on the CalSci campus, Dr. Finch attempts to twist Charlie's arm into particpating in a lucrative grant project sponsored by a pharmaceutical company despite Amita's reservations concerning the company's business practices in the third world.
The authorities looking into a case are lead to believe that a former gang member was behind a police officer's death, a death they think was a revenge killing for the death of the former gang-member's brother. However, when Charlie gets a hold of and analyzes the data, his findings lead the FBI through a tangled web of suspects and dirty cops. Meanwhile, Don and Liz's relationship moves to the next level.
In other developments, Alan Eppes is sued for a driving range project he designed that has become a neighborhood nuisance. Dr. Mildred Finch asssts him in finding out what went wrong and who is responsible.
While training for an upcoming championship match, a martial arts fighter dies in the ring. The case becomes more complex when the victim's sparring partner, a friend of David's, emerges as the prime suspect.
Meanwhile Charlie has to contend with a competing professor's psychological warfare while he is preparing to defend Dr. Fleinhardt's seat at the final table of the poker championship while he's aboard the international space station.
Don has another visit with his therapist while the team must race against the clock to find a young boy who has been kidnapped. Those behind the kidnapping refuse to release the boy until the $3 million ransom is met.
Several suspicious deaths of people in similar careers are found to be connected to an electronic voting fraud conspiracy. Don and the FBI team, with the help of Charlie, must track down those behind the conspiracy before more are killed. A well-connected billionaire seems to be at the center of the scheme.
Sabremetics whiz-kid Oswald Kitner returns to assist Charlie with the statistics based mathematics aspects of the case.
A small plane crashes mysteriously in a forest, killing all on board. Amita & Dr. Finch help Charlie repair the plane's black boxes. When Charlie is able to test the in-flight computer, he uncovers the surprising truth behind the crash. Meanwhile, Charlie is also busy tracking down a burglar after his house is broken into.
While on the hunt for a serial letter bomber, Don and Charlie disagree over whether a suspected bomber, who had eluded conviction years earlier, is the person responsible for the latest murder. Complicating the situation, they both have to cope with an over-zealous ATF agent who is hell-bent on railroading the suspect despite only flimsy circumstantial evidence.
Meanwhile Alan and Millie bet one another they can each go for 30 days without buying a new consumer item, only food and necessities.
Don believes that a death row inmate has an ulterior motive when he suddenly wants to confess the whereabouts of bodies he buried during his days as a hit man for the mob.
Dr. Larry Fleinhardt returns to Earth from his mission aboard the International Space Station. He brings back an Aztec kipu (macrame necklace) that he made in orbit along with a phobia of enclosed spaces. Dr. Finch wants to throw him a big party, but Larry wants to keep a low profile. After a low-key welcome home dinner at the Eppes', he reveals that he's going to take up residence at a near-by Bhuddist monestary for the time being.
Don and the FBI uncover a possible terrorist attack on Los Angeles that targets the city's water supply. Much to Don's dismay, Charlie gets their father, Alan, more involved in the investigation than Don is comfortable with.
When thieves hijack a truck filled with valuable medical supplies, $50 million dollars intended for a relief effort in Zambia and two aid workers, the FBI races a second violent crew intent on getting to the goods first. Charlie agrees to a joint session with Don and his therapist to discuss issues that arose during their childhood.
Following a deadly standoff with a mysterious bomber, Don and Charlie learn that he was poisoned in order to keep him from revealing a secret that changes the FBI team forever.
Agent Granger finds himself in prison after it is uncovered that he is a mole for the Chinese in the FBI. But when Granger escapes, Don and his team must track him down and uncover the tangled truth behind it all. Charlie considers trying to have his paper on the mathematics of friendship published.
Secrets and blackmail are revealed when a woman is murdered in an up and coming actor's home in the Hollywood Hills. Charlie and Amita discover that DVD piracy is linked into the blackmail scheme.
A typical morning at a coffee shop is thrown into chaos when a car slams into the cafe, killing one and injuring several. However, the team soon finds that it may not be an accident after all. Larry suggests that Dr. Ray Galuski, a mechanical engineering professor, might be very helpful in the investigation. Ray and Alan hit it off immediately and soon Alan is going back to school part time.
After breaking the patterns in Bible verses that a killer leaves behind, Don and his team are able to track the killer, but remain one step behind. The investigation is complicated by an interested individual following the case who is stalking the team as they proceed.
A private safe deposit bank that holds millions of dollars for the rich and famous is robbed, but the contents of safety deposit boxes are later donated to charities. The items have been stolen from less than upstanding individuals. Don and Charlie must find out who is behind the Robin Hood chain of events. Charlie and Amita disagree over an initial meeting with Amita's parents. Dr. Fleinhardt and Alan engage in a CalSci campus tradition of dropping pumpkins frozen in liquid nitrogen from the top of buildings.
When a member of the Witness Security Program is murdered in cold blood in her home, Don can't help but feel responsible for her death. As the investigation unfolds, a twisted trail leads to organized crime in Albuquerque, a Los Angeles street gang, and a drug dealer from Seattle. Meanwhile, Charlie's book, The Attraction Equation, is published and he attends his first book signing.
Don and his team enter the world of alternate-reality games following the death of a man who was participating in a game. The victim was an Assistant US Attorney, thus putting it within FBI jurisdiction. During the investigation, Amita's life is threatened when her hidden ability helps to find the killer. Meanwhile, Charlie makes a television appearence to promote his new book, The Attraction Equation. Charlie and Amita discuss the possibility of living together. Dr. Larry Fleinhardt returns to campus from his sabbatical following his outer space adventure.
A high-profile heiress is kidnapped by a group who is out to attack her father. Don and the team try to save her, but their rescue mission takes a shocking turn when they learn the group's true motive. The circumstances of the investigation hit a bit close to home for Megan, causing Don to reign her in. Don and Liz attempt to determine where their relationship is heading. Larry and Megan rekindle their relationship.
Charlie helps Don and his team find a rare vintage ashcan version of a comic book that was stolen from a comic book mogul at a convention. The investigation becomes more complex when 14 forgeries of the comic book suddenly appear in the wake of the theft. Meanwhile, Charlie finds himself the subject of a profile piece in Vanity Fair magazine due to the popularity of his book. He becomes concerned that the article is going to slam him because he has very few close personal relationships outside of family and work.
A former FBI subcontractor guns down an agent inside the agency's headquarters and takes a member of Don's team hostage. Charlie and Alan, who are visiting the FBI office, assist in resolving the situation. Megan and Liz take to the field to learn more about the hostage taker.
Someone is trying to physically intimidate Charlie so he will stop working a case where an investigative journalist has gone missing.
Meanwhile, Professor Ray Galuski has been helping Alan do some projects around the Eppes homestead. When Ray suggests a number of improvements to make the home more environmentally friendly Alan gets upset at the thought of changing things.
A police officer who is also a serial rapist, uses his position to lure victims. The rapist is being sought by Don and his team. Don and Megan experience difficulties with a female Internal Affairs Officer from the LAPD who jeopardizes the investigation by jumping to conclusions and browbeating witnesses.
Meanwhile, it's a full house for the weekend at the Eppes family home as Alan has invited Dr. Larry Fleinhardt for the weekend without knowing that Charlie has invited Amita to spend the weekend because her residence is being fumigated. Larry asks Amita to join him on an important project and is relieved when Charlie enthusiastically supports the idea.
Don and the team bust a meth lab, but Don's instinct leads him to arrest a bystander who is planning an even greater scheme.
Don's former girlfriend, Robin Brooks, returns to California to prosecute a criminal. However, when the witnesses for the case are murdered, Don and the team worry that the next victim will be Robin.
Don and the team search for an ex-Marine who has been accused of murder. Things become complicated when the Marine's family is kidnapped, leading Don to believe there is much more to the case than meets the eye.
An FBI team investigates a mass poisoning at a cult compound in which the survivors refuse any medical assistance. What is uncovered is a history of bad blood between members and a murder conspiracy.
A drive by shooting takes the life of a rap star and a further investigation shows evidence of a possible conspiracy , including embezzlement and bribery. Meanwhile, Charlie prepares to meet Amita's parents.
Differing beliefs leaves Charlie and Don in a conflict when they investigate a case involving national security. Meanwhile, Megan decides to leave the team after a crisis of conscience.
Don and his team search for the people responsible for the deaths of two rock climbers who had a large diamond in their possession. Meanwhile, Charlie debates getting his FBI clearance reinstated as a new agent joins the team.
Don investigates when someone is murdered at an ATM after a series of kidnappings had occurred there. Charlie meets with an FBI investigator who can grant or deny him a security clearance within the bureau.
After eight people, including two police officers, are killed in a coffee shop, the team assists the LAPD in the investigation and soon uncover a trail of blackmail and corruption. Meanwhile, McGowan continues his investigation into Charlie and Don.
Don and the team help an FBI agent with his search for a con man. Meanwhile, Agent McGowan delivers his final decision on Charlie's clearance and Don's future in the FBI.
When a shipping service discovers they are missing high-end goods the team hunts down the crew responsible and ask an employee with savant-like abilities to help them find who is behind the crime. Also, Don questions his faith in the FBI after one of his men is killed while on duty.
When a female magician disappears on stage during a trick and doesn't reappear, Don is sent in to investigate. David was in the audience and witnessed to act.
Don & Charlie investigate when a family friend who was a park ranger and a former professional surfer is found murdered. Although the death was ruled an accident, the guys probe links this crime with another.
When a passenger train and a freight train carrying toxic chemicals collide, Don, Charlie and the rest of the team must determine if foul play was involved in the crash.
The bombing of a charity headquarters sends the team down a trail of rumors in order to get to the bottom of who is behind the attack.
When a vigilante goes after a known criminal, Charlie has to go to his rival for help. Meanwhile, Don debates his choice to embrace religion.
A teen killer who was sent to prison by Don, after embarking on a cross-country killing spree along with his 30 year old Texas schoolteacher, has escaped and is bent on revenge. Don hopes his newly found religious beliefs will help him through this dangerous situation.
A bus full of Hollywood tourists are taken hostage and the team is given just four hours to meet the hijackers demands.
After a fight breaks out between rival Chinese gangs within the black market, an undercover FBI is kidnapped. Psychic Samuel Kraft lends his help to the case.
Thieves have broken into the private residence of a foreign ambassador, and a pair of limited edition sneakers have been stolen which he paid over $250,000 at an auction. Don and his team head to the underworld of sneaker collecting. Meanwhile, Liz has second thoughts about a leave for Denver in which she will receive a promotion from the Bureau.
When an accused arms dealer gets acquitted of a murder charge despite strong evidence saying guilty, leads Don and his crew into a case for possible jury tampering.
In order to stop the introduction of a new drug to the streets, Charlie comes up with a plan that will put Liz in the line of fire.
When a super computer is to blame for the death of a scientist, the team goes to new lengths to solve the case. Meanwhile, Charlie contemplates a job offer.
The team is in a race against time to look into a last minute tip that would clear a mob boss on the night of his execution. Meanwhile, Charlie tries to help the CalSci basketball team break their losing streak.
The investigation of a CalSci professor's death uncovers a possible link to a radical animal rights organization.
Charlie is used for his math skills to help profile the suspects of home invasions which the FBI has been called in to investigate. But his calculations go awry following a raid, causing Don to suffer a life-threatening injury.
Feeling guilty over the stabbing, Charlie puts his attention on finding a serial killer using math theories to help the team solve the case before another life is taken.
Don and the team are sent to look into a series of bank robberies and soon name former FBI Agent Roger Bloom as their lead suspect.
When Amita is abducted, Don and the team’s frantic search for her leads them to the delusional head of a cult, but it is up to a distraught Charlie to discover what the suspect’s bizarre plans for her are.
Don and his team are out to protect former radical Benjamin Polk from a determined sniper who wants him dead, and who is leading the FBI on a cat-and-mouse chase as he closes in on his prey.
Two FBI agents are killed during a bank robbery, Don's team is called to investigate. Meanwhile, Charlie and Amita begin to worry when Larry doesn't want to attend a conference in Geneva.
To find the person behind a deadly gambling ring that is running a high-stakes Russian roulette tournament, Don and his team are called in to investigate. Elsewhere, Don and Charlie become concerned over the financial health of Alan.
The team investigates several deaths that turn out to be copies of a soon-to-be-released movie, while Larry goes on his own personal adventure.
The team tries to track down the daughter of a geneticist who they believe was kidnapped by her mother. However, the case becomes complex when they have reason to believe the daughter was a clone. Meanwhile, Charlie and Amita discuss having children, and Liz reveals a secret.
The team investigates a decommissioned air base after a woman is found dead there, but their investigation is interrupted by paranormal happenings.
In order to track down a cyber crime lord, the team puts together an undercover sting, but their operation is stalled by a hacker who is trying to take over the Internet. However, his attempts to take over the Internet may lead to a dangerous online war that could result in murder.
While tracking down a criminal who is running a heroin ring inside of a prison, Agent Ian Edgerton becomes a murder suspect when an informant is killed.
Don and the team are lent a hand by convict John Buckley when robbers break-in to a diamond exchange and take hostages.
When the FBI takes down a gang responsible for a series of armored car robberies, the aftermath reveals something quite interesting, which is that some of the bills in the car were flagged as part of the infamous and unsolved D.B. Cooper hijacking. The team calls in Agent Roger Bloom, who happened to have worked on the original investigation, for assistance.
The team looks into the theft of a batch of scratch-off lottery tickets, and they find out the culprit may be a former lottery winner.
The team is called when a shipment of high-caliber firearms goes missing, and one of the stolen weapons is used in random killings throughout the city. Meanwhile, Charlie and Amita disagree on a wedding date.
The team hunts down a serial killer who is targeting men who use prostitutes. Meanwhile, Colby and Nikki are involved in a car accident during the investigation.
The team search for jewels worth millions that were stolen during an awards show. Meanwhile, Don looks into an old case that has been haunting him and Larry returns.
The murder of two men takes the team to investigate a group of friends that had been sexually assaulted by a teacher at a younger age. Meanwhile, the perfect job opportunity pops up for Charlie and Amita, that may also put a wrinkle on their wedding plans.
After Charlie and Amita get married and begin preparations for their London adventure, they put a slight hold on their wedded bliss when they assist the team in helping Don track down the whereabouts of his gun after it goes missing.