While attending an anger management class, and not being able to hold down a job, Jordan receives a call from her old boss, Garret, about getting her old job as a medical examiner back. Meanwhile, Garret who deals with the death of his ailing mother and losing a promotion to a colleague, begins to debate if he even wants to remain at his job. When a young Jane Doe is found dead in an alley frequented by prostitutes, Jordan makes a startling discovery. Even more startling is how the Jane Doe is connected to a city councilman who committed suicide, and where the murder evidence leads.
Without an apartment yet, Jordan is sleeping at the Medical Examiner's office because she is still uncomfortable with Evelyn living with her father. When Dr. Grace Yakura calls a staff meeting and Jordan gets snubbed without being assigned a case, Dr. Yakura makes it clear that she does not approve of how Jordan is representing the Medical Examiner's office and is watching Jordan very closely. Garrett hands Jordan a fresh case when a cab driver is shot and killed in his car, while Garrett works on a case of a jogger bludgeoned to death. When Garrett finds the cab driver's license plate imprinted on the dead man's skin, Jordan and Garrett have to figure out how their two cases are connected. Meanwhile Trey is assigned an old case of a John Doe that needs indentifying, endearingly dubbed Mr. Stinky, with the help of Bug and Nigel, they work feverishly to meet Dr. Yakura's deadline. Garrett brings in his Victrola, a very old gramophone, into his office to play his 1920's jazz, he is surprised to learn that Lily shares his passion. This makes him a little more comfortable with her flirtatious attitude around him. Tempers flare when Jordan joins her father and Evelyn for dinner, and she confronts Evelyn about throwing out her mother's clothes. When Jordan seeks her father's help with the case, she has to come to terms with Evelyn being a part of his life and decide if she can accept it.
Jordan is assigned to a mystery woman after a torso is found, which is quickly assigned to the prison system. Jordan struggles in finding out who the woman is and who murdered the victim.
Jordan tries to find the truth behind the mysterious and sudden death of a firefighter.
Jordan investigates the murder of a senator's daughter, who was found stabbed in a park. Meanwhile, Bug and Nigel face some hard decisions at the morgue.
When two children are kidnapped, and one is found dead, Jordan hurries to find the other child before it is too late.
Jordan investigates a string of murders that finds women buried alive. The dangerously frightening thing is that Jordan matches the profile of the women already murdered.
Still on the search for "Digger", Jordan finds herself bonding more with Drew, Garret adjusts to his new position, while Nigel and Lily continue to outsmart the INS as they prepare to get married.
When a veteran cop named Max is murdered, Jordan and Max's old partner, Eddy Winslow, find the cop-killer and bring him in. However, when the cop-killer dies in police custody, Garrett is forced to open an investigation. Garrett also chooses to skip his annual Christmas dinner with ex-wife Maggie and his daughter Abby, and instead chooses to dine with Lily, Thailand-style. Meanwhile, Trey worries that Nigel's invitation to the ski slopes is actually an invitation to have an affair.
Woody is desperate to go to a Kinks concert in Miami. Things begin to get interesting as Jordan looks at a dead suspect and notices he only has one arm. This takes her back to a murder case that involved Jordan putting a woman named Faye Vaughn on death row. Now Jordan has one big problem - Faye Vaughn, who said that a man with an artificial arm is set to be executed in five days. Bug is shocked when he sees the body of Lester Abbott in the morgue and realizes he earlier saw that same man being kidnapped. Jordan and Woody look at a tape that shows Faye threatening the dead man's life. Jordan discovers why the second bullet was never found. The second bullet went into the man's prosthetic arm, cracking it.
Garrett investigates what he believes are simple drug overdoses only he has a problem. When he does the autopsy on both victims he has trouble finding their cause of death. Garrett finds their cause of death in an unlikely place a cardigan sweater! Now that Dr. Macy has located the drug he and Nigel set out how to extract the drug from the sweater.
Nigel has to give a presentation to the American Medical Examiner's Association introducing the latest cutting edge methods. He introduces the trace evidence concentrator. The machine will be used in hopes of eliminating toe tags and cataloging all deceased bodies by bar code. Jordan learns that monster Kevin Cahill is out for revenge against Jordan's father. Max tells Jordan the reason the monster is out of prison is because of a cop killing case Max was working on 30 years ago. They later charged Cahill with murder. He was in prison for 30 years and is killing off those that put him in prison. Nigel discovers a flaw in his trace evidence concentrator. When to grieving parents come to look to the body of their deceased daughter they discover their daughters’ cause of death is messed up.
For Woody the case hits close to home after he and Jordan undercover bodies from a mass grave. After they get the identity of the first body they discover they have a mob hit Woody later learns his brother Calvin needs a lot of money to hide the truth about what he really knows. Woody's suspicions about his brother are confirmed when his cell phone rings and a man answers the phone. Jordan tries getting Woody and Calvin close together but things begin to get dangerous when the monster Calvin is trying to get money for captures them.
Jordan, Woody and Garrett must race against the clock to try and keep an accused murderer behind bars. They quickly have to solve the murders of 14 women killed some 20 years ago. Jordan and Woody use the method of Locard's Exchange. Locard’s Exchange means that the perpetrator comes into contact with each crime scene leading something behind and each scene. Emmett Parker killed 14 women with dark hair and evil in the victim’s eyes. This makes Jordan and District Attorney Rene Walcott potential victims of Emmett Parker. Now Jordan begins to go backwards in solving the crime she takes evidence from the victim's to help convict Parker.
Jordan and Woody try to find out why someone who worked at the Dominican Consulate was murdered after Nicole demands to see her husband. After she demands a thorough investigation Jordan is held hostage to do a live autopsy to find out exactly who murdered the dead man. Garrett learns that because of Danny's diplomatic immunity he was selling drugs and his friend was shot because he found out about it.
Garret meets Charlie Davis at a crime scene where a man (her ex-boyfriend) was stabbed 17 times (with a knife from her bar). During the autopsy a bruise in the shape of a stiletto heel is found on the victims body which further points to Charlie as being the killer. Charlie asks Garrett to prove her innocent but that may be hard to do when Detective Framus begins to suspect that Charlie’s (ex)-boyfriend isn't her only victim. Garret performs a live autopsy on Charlie to see if he can prove her innocent or guilty of murder. After the arrival of the exhumed bodies of Charlie's fiancé (who had died a few years ago) and another of her ex-boyfriends (sometime after that), a disturbance is heard in the autopsy room (someone poured acid onto the bodies) just after Garret's record player begins to play the same song Charlie listened to when she was in his office.
Nigel seems unusually happy because he finally found a soul mate named Sarah now he vows to find Sara's daughter Maddie. Lily is surprised when a John Doe thought to be dead suddenly turns out to be alive. She then discovers a letter written by his wife Doris who he left some years earlier due to an affair he found out about. The John Doe was found in an alley behind a theater. Garrett finds out that Carl is an anatomy illustrator.
Dr. Macy's days at the morgue maybe numbered. Dr. Jack Slokum tells Garrett that the governor's special commission on crime has suspended him because a witness came forward with evidence that Garrett may have missed on a case 20 years ago. Dr. Slokum asks Garrett to come clean with the evidence on Sylvia Moreau or risk his job. Garrett tells Jack that Sylvia is injuries were consistent with a jump. Jack tells Garrett that Sylvia fell 23 ft. from a window, which is not consistent with a jump, but with a push leading him to suspect murder. Terrence Duvall was running for the Senate. Sylvia Moreau was a reporter covering the Senate campaign. The reason Garrett ruled Sylvia Moreau's death a suicide was because someone was trying to link Terrence Duvall to Sylvia Moreau 's death. Terence Duvall worked as a campaign manager for Joel Lancaster.
Garrett's boss at the time tells that Terrence Duvall and Sylvia Moreau are about to get married and to keep it secret. Woody asks Jordan if she'd like to go to a concert. When Woody learns that Lily set Jordan up on a blind date he was very angry.
With a familiar killer in their midst, Slokum is forced to get help from an unlikely source. Will the morgue staff be able to stop this killer…again?
When a pair of bodies ends up in the Boston Morgue, one clue will lead to fabulous Las Vegas. With Woody in Vegas and Jordan and Boston temperatures rise on a couple of…couples.
Jordan’s defiance of Dr. Macy ends up putting her own life in danger. With three boys missing and bodies turning up, Woody and Dr. Macy don’t realize they are also searching for one of their own.
Jordan feels bad when a prison inmate dies after promising that she would make sure he would live long enough to see his release date. While at the prison she notices the inmate needs immediate medical attention but the prison won't let him get it. Lily learns that her mother adopted her. She learns about the adoption in a rather unexpected way someone brings files to her. Woody in the meantime is busy trying to catch on hostage and keep his family free. Lily later finds herself being held hostage in a court building and trying to negotiate so that she and everybody else won't be hurt.
Jordan is asked by J.D. Pollack to investigate the death of a cult leader's ex-wife. He asks her to determine whether the death was suicide or homicide. Jordan quickly finds the answer when the victims cell phone rings and on the other end is Woody asking where Jordan is. When Jordan finds a gun in the dead woman's hand Jordan begins to suspect she shot herself. Jordan determines that the young woman didn't shoot herself because there was no gunshot residue on the hand. Making Jordan and Woody go from thinking the case was open and shut to finding out that the case is going to be more difficult solve. Woody meets the new psychologist. Lu Simmons she will determine if he is able to control his temper or go to desk duty until he is. She first sees how easily his temper is out of control when he finds his parking spot taken. When Mr. Carter arrives at the morgue bug and Lily giveaway the husband's offspring to the wrong lady but they don't realize that until it's too late.
With a suspect that has confessed Woody thinks the hard work is done. Only problem this suspect has no recollection of committing the murder. With the help of the new psychologist Woody will learn all is not what it seems
It's a race against time as the entire morgue works to stop a series of bloody murders. A copy-cat is replicating the crimes of the Mass Pike Killer bringing Woody (Jerry O'Connell) and Jordan (Jill Hennessy) face to face with the original criminal. Jordan is unsettled when the murderer begins to unravel her emotions and pin point her intimacy issues.
Woody is out to nab a cop killer whose crime leaves two teenage children fatherless, but when evidence inexplicably turns up at the scene he is suspected of planting it. Jordan and department psychologist Detective Tallulah Simmons (Leslie Bibb) team up, they must work together to clear Woody's name. Meanwhile, Nigel is intrigued with a woman's story about alien abduction and is determined to help her husband receive his dying wish.
When Jordan is brought in to analyze an accident scene the missing body leads her to new clues in an old case. Meanwhile Woody and Macy team up to bring down a mob hit man who is suspected of murdering his brother's wife, but the evidence scarce. Lily is flattered when A.D.A. Jeffrey Brandau nervously tries to ask her out
Jordan and Woody are called to investigate a mysterious murder at a quaint bed and breakfast, it isn't long before the 100 year-old crime that made the house infamous is revealed. A sudden snow storm traps the crime fighting duo and it is hard to distinguish the facts from the legends as a local cop, the hotel caretaker, the current proprietor and several ghost chasing guests all become possible suspects.
Meanwhile, back at the morgue, old feelings resurface and Bug becomes jealous when Lily announces that she has a date.
Macy is the pivotal witness in a murder case, but when he is charged with a DUI the night before the trial his credibility is questioned and his career is put in jeopardy. While Jorda avoids talking to Woody about their romantic encounter she turns her attention to clearing Macy's name. Bug finally finds the courage to tell Lily that he has romantic feelings for her.
Jordan and Woody find themselves investigating the murder of a military officer, but when Pollack writes an explosive expose on the investigation, the threesome find themselves entangled in a dangerous corporate cover-up.
Meanwhile, Macy struggles with the realization that his daughter may be involved in drugs.
Macy is stunned when he discovers that a body from a gang related shooting is his daughter's boyfriend. When a gun from the scene of the crime returns with Abby's prints on it the entire team focuses on finding the missing girl. Jordan is discouraged when she discovers that Macy is still drinking on the job.
A bomber strikes a Boston commuter train, leaving multiple people dead and many more injured. When the team is called in to help federal agents with the wreckage, they make a gruesome discovery-most of the casualties were children on a field trip. After Jordan takes the first wave of bodies back to the morgue, she begins the horrifying process of helping parents to identify their loved ones.
Meanwhile, Woody, Lu and Nigel search for evidence that may bring them one step closer to the bomber. Tensions run high in the morgue and in the field when Macy and Lu are reminded of painful losses from their past. Yet, there is no time to grieve, another bomb lies somewhere in the city ready to explode, and it is up to Woody and the federal agents to find it.
With Massachusetts suffering from a devastating wildfire, six firefighters perish in the blaze. Macy, Jordan and Nigel discover that these brave men should never have died and begin investigating whether they were murdered and, if so, who is to blame. Despite hitting a snag in their new romance, Woody and Lu work together to solve the mysterious death of an unidentified man in a superhero suit, which inevitably closes the distance between them and places them back on track. Meanwhile, Macy is torn about what to do when his daughter Abby threatens to leave rehab.
After hearing gunshots in her apartment building, Jordan investigates and finds a 13-year-old girl standing over her father with a gun in her hand. Jordan is skeptical about the teen's claims to have found him dead, but this all changes after she witnesses two attempts on the young girl's life. Reminded of the loss of her own mother at the hands of a murderer, Jordan is determined to bring this perpetrator to justice.
Meanwhile, Macy, Nigel and Lily investigate a drunk-driving accident and discover that one of the victims is the notorious heir of a prominent family. Yet, none of them are prepared for the shocking secret they discover -- a secret the family doesn't want anyone to know.
A schizophrenic living in a halfway house is the prime suspect when the murder of a teenage girl occurs in the neighborhood. Woody and Lu disagree on how to handle the case, but eventually begin to see eye to eye. Macy questions Jordan as she wrestles with the idea of Kayla moving in with her as a foster child. Jordan is frustrated by the lack of support she is receiving from her friends.
When a professional baseball player is accused of rape, a shocking twist emerges when they check out his alibi. Jordan and Lu have different theories about what really happened to the victim and eventually Jordan is taken off the case for obstruction. Meanwhile, Jordan's jealousy of Woody and Lu's relationship comes to a boil. Nigel becomes determined to find the family of a fighter pilot frozen in time as Bug helps him to cope with the relationship he doesn't have with his own father.
Jordan investigates the mysterious murder of a woman believed to be a miracle worker and living saint. She also confronts Woody and Lu about their concern for her feelings over their blossoming relationship. Meanwhile, Bug investigates the death of man who he believes was trying to change his life around. Macy helps Lily re-evaluate her relationship with Brandau and her career, leading to some surprising decisions on her part.
When Macy tries to deliver some personal effects of a deceased elderly man to his family, he finds a young boy being held captive. When the young boy’s deranged captor discovers that Macy knows his secret, he knocks him unconscious and takes him hostage. After Macy awakes, he finds that he has been chained up in the basement. Determined to make it out alive and to rescue the boy, Macy tries to buy himself some time.
Meanwhile, Jordan and Lu butt heads when Lu brings in the morgue’s janitor as a suspect in a jewelry-fencing scheme. As Lily’s wedding approaches, she is caught off guard when she accidentally runs into Bug on a date.
Jordan finds herself in an unexpected situation that will challenge her both professionally and personally. After celebrating Lily's engagement and pending nuptials, Jordan wakes up the next morning next to the dead body of her former beau J.D. Pollack. With little recollection of the previous night's events and no explanation of what transpired, a shell-shocked Jordan becomes the number one suspect. Determined to clear her name, Macy and the rest of the team begin investigating what led up to Pollack's death.
Meanwhile, Woody and Lu take opposite sides on the case, creating a wedge between them. With the evidence stacking up against Jordan, she must persuade her friends and colleagues that she is innocent. Or is she?
Fugitive Jordan pursues the truth about J.D.'s murder by traveling to Washington, D.C., where she hopes to uncover the news story he was working on to find out if it was the reason for his death. Meanwhile, Macy tries to locate Jordan; and Lu works with a no-nonsense independent investigator to prove Jordan's guilt.
Jordan and Lu investigate the suicide of a teen, whose note indicated that he'd been molested; Woody looks into the gruesome death of a woman who was hit by several cars on a highway; Macy warns Jordan that she needs to do things by the book when an investigator starts poking around the office; and Lily receives some surprising news.
A riot erupts in Boston after an eight-year-old boy is shot 33 times by police. Jordan the rest of the team of coroners as well as Lu and Woody join together to investigate the young boy's death and the police officers' involvement in it. With violence overtaking the city, Jordan and her colleagues are faced with the death of one of their own.
When a Las Vegas prize fighter is found dead after winning a match, Danny and Delinda decide to stay in Boston to help Jordan and Woody investigate his murder. Meanwhile, Bug investigates the death of a young woman whose body was found in the river and had been there since the 1980s. After a month away, Lily returns to the morgue.
Special prosecutor Ivers continues his investigation into the practices of the morgue, and Macy asks Jordan once again to behave herself. Jordan and Lily go on a road trip to recover the body of a little person, but only to find it stolen from the back of the morgue's van. Woody finds the body of a 16-year-old boy and encounters a rogue cop during the investigation. Meanwhile, Lily wrestles with the impact her love triangle will have on her unborn baby.
A high profile defense attorney, Shelly Levine, who has a history with Macy, is found shot and presumed dead. The only problem is he is very much alive and can hear and feel everything. With his autopsy looming, will Jordan or the rest of the team of coroners notice before it's too late?
A serial killer taunts Nigel through his online blog with clues that lead to a real life murder scene. As Woody, Dr. Kate Switzer and Nigel try to piece clues together from the victims bodies, the killer challenges Nigel to find the next victim before it's to late, but he only has 24 hours. Back at the morgue, Jordan and Bug are forced to audit old files for William Ivers. Jordan finds a mistake that may have sent an innocent man to prison, but she is torn about whether keep it to herself.
Jordan defies special prosecutor William Ivers orders by performing an autopsy on a corpse that she believes did not actually die from the flu. Woody's interest is piqued after the corpse spews out an unusual liquid and he offers to go with Jordan to investigate. They quickly realize that the situation is more serious than they thought and could trigger a public health scare. Meanwhile, Bug is concerned about Lily coming in contact with the deadly virus since she is pregnant and cannot take any medication, leaving Lily to make a tough decision.
When Jordan, Macy and Detective Matt Seely attempt to solve a16 year-old girls murder, they discover that she was keeping a scandalous secret. During the investigation, Jordan begins to struggle with her declining health and Macy decides to confront her. Meanwhile, Woody, Dr. Kate Swtizer and Bug try to determine the cause of death of a mummy, but discover that the body is actually a modern day woman.
Jordan and Woody have the difficult task of trying to solve the murder of a pregnant woman and finding the baby that is now missing from her womb. While they wait for the DNA test results, Woody discovers that Jordan has made a crucial mistake that affects the case. Macy gives a tour of the morgue to a bunch of juvenile delinquents and tries to teach them a lesson about the value of life, but realizes it's harder then he thought.
Woody and Jordan desperately try to find a school bus full of children that is hijacked and then disappears. After locating the bus they have to use the forensic clues that were left behind to lead them to the missing kids but that turns out be harder then they first thought. Meanwhile, Dr. Kate Switzer and Nigel are stunned when they come across the dead body of "Santa" in the morgue. Also, Jordan's secret is finally revealed and everyone in the morgue is concerned for her health.
Macy takes Jordan to the hospital for her extremely risky brain surgery that will hopefully save her life. As he waits at the hospital, everyone else tries to keep busy in the morgue to avoid worrying more about Jordan. Woody tries to keep his mind occupied by throwing himself in to a murder case of a cop and an eyewitness that was about to testify against a gang leader.
Macy and the rest of the coroners decide to take turns helping care for Jordan after her brain surgery. When Bug does not show up at Jordan's to relieve Woody, Nigel gets angry and then realizes something is wrong. Woody and Nigel begin to investigate and find out that Homeland Security has taken him into custody and are accusing him of being a terrorist. Meanwhile, a pesky detective keeps hounding the morgue staff to do an autopsy, but everyone is preoccupied with what is going on with Bug and whether or not he will be set free.
Jordan decides that she is ready to get back to work, but Macy is reluctant because he feels it is to soon. After agreeing to take it easy Jordan finds herself thrust into a murder case and find herself back to her old ways. Everyone is concerned about Bug's demeanor since his encounter with Homeland Security and wants him to open up about his experience. Meanwhile, Nigel and Kate team up with Woody to help solve the murder of a groom on his wedding day.
A woman that has been presumed dead for the past six years actually has just died a few hours earlier and has caused Jordan and William Ivers to team up on this peculiar case. Woody and Bug are called to help Lily and Brandau when the psychiatrist they have been seeing suddenly dies in front of them during their session. At first they all believe that it was a heart attack until they find a mysterious stab wound. Lily suddenly goes into labor and the team helps her deliver.
When an odd man wanders into Woody's office and claims there has been a murder, Woody and Jordan learn that the man is the one that was murdered. The man reveals that he was given a slow acting poison that will inevitably kill him. His only request is to find his missing daughter before he dies and Jordan and Woody agree to help. Nigel and Kate team up to solve the murder of two magicians that have seemingly killed each other. Bug makes a decision that will change Lily's and his lives.
AN UNFORGETTABLE FLIGHT IN THE SEASON FINALE -- Kate Switzer is put in charge of forming a team to investigate what killed a ship full of people on the Norwegian Sea and enlists the help of the entire group of coroners. On their way back to Boston, the plane suddenly flies into an unexpected storm causing the plane to crash in the mountains. Woody and Bug set out on foot to try to get to the highest point and get a radio reception to signal for help, but hit a roadblock when they reach an impassable mountain. In order to stay warm and keep busy, Jordan, Macy, Kate and Nigel decided to do what they do best, autopsies. While they are trying to figure out what mysteriously killed these people, they all secretly wonder if they will be rescued.