Gibbs is ordered to meet with a convicted serial killer three days away from his execution in order to find out crucial information before he dies.
Under order from the Governor of Virginia, a skeptical Gibbs is forced to meet with a serial killer he helped to convict a decade before under the pretense that the killer will tell Gibbs where he hid missing bodies and give closure to the families before his death. Gibbs' instinct is correct when the killer is coy and doesn't reveal what he promised. Nonetheless, Gibbs has an NCIS team in place to re-investigate the possible locations of the victims. When a crucial piece of information is discovered, Abby and McGee use their expertise to attempt to pinpoint where the bodies might be.
Gibbs and the team investigate the murder of Marine's wife that appears to have been broadcast over the Internet, on NCIS.
The NCIS team discovers that two bored housewives, whose husbands are serving in Iraq, have been running an Internet sex site from their bedrooms. With both women now missing and an Internet file of what appears to be a murder, Gibbs and the team decide to track down the webmaster and follow the money in order to locate the murderer.
Gibbs and the team investigate when a 6-year-old boy informs NCIS his father has been kidnapped.
Gibbs quickly develops a unique bond with the young boy whose missing father is a Lt. Commander working as the Navy's liaison with a defense contractor on a highly confidential project called "Honor." The NCIS team discovers that the top-secret program, for which the missing Commander holds the only code, has been hacked and classified data has been removed. As the evidence begins to indicate the kidnapping may be a hoax, Gibbs holds his ground when his gut tells him the Lt. Commander is innocent.
When the bodies of two assassins are delivered to NCIS from overseas, Tony and Ziva assume their identities undercover and engage in a sexy rendezvous at a luxury hotel in order to find their target.
The NCIS team rallies to clear his name when Tony is accused of murder.
When a portion of a female body is found at Quantico, the NCIS team investigates and is shocked to discover that all the forensic evidence points to Tony as the prime suspect. As Abby questions her faith in her science and her ability as a specialist, she makes it her personal mission to prove Tony's innocence and find out who is trying to frame him for murder before it's too late.
Gibbs and the team are called in on a weekend when a Navy Lt. Commander in charge of a shipment of nuclear weapons is apparently abducted.
The team works to piece together the Lt. Commander's location by tracking a distress call she made from her cell phone. Believing her captors have abducted the Lt. Commander to commandeer the nuclear shipment, NCIS must move quickly to find the missing woman and protect the classified location of the weapons.
When the wives of two Marines are murdered, Gibbs and the team are called in to investigate. While investigating, Gibbs and the team fear the murders are racially motivated. The team works together to find the killer and protect another woman and her newborn baby who they fear are the next targets.
A Park Ranger is taking a group of Boyscouts around Shenendoah National Park, when they stumble upon bear droppings. One of the Scouts pokes around in it, to discover what the bear ate. Instead, he finds dog tags. A search for the remains of a dead Petty Officer ensues.
Somehow the NCIS team is called to the scene of a High School where a teenager with a bomb is holding some kids hostage. One of the kids is in need of her inhaler for her asthma, and another student stands up for her. When she goes to the lockers to get it, she's able to tell Gibbs what's going on inside.
An older couple is checking into off-base Navy lodging, but when they enter they are shocked to find a gruesome scene. The clerk is immediately under suspicion. We'll also meet Abby's former boyfriend, who's also a goth and runs a crime scene cleanup company.
Tony and Ziva are coming into NCIS headquarters with $5 million and a drugdealer suspect, who dies in the elevator ride up. His brother wants his cash and brother back, but doesn't know he died. When NCIS is not giving in to his demands, he takes extreme measures.
The NCIS is distressed when Gibbs is injured in a terrorist explosion while on assignment. As the team attempts to put their feelings about Gibbs' injury aside and work on the investigation, Tony steps into the role of senior agent, causing a bit of resentment from other team members. Meanwhile, while recovering, Gibbs is flooded with memories of his past that he had long struggled to suppress.
While Gibbs recovers from an injury caused by a bomb explosion, he experiences temporary memory loss, while his team tries to stop a terrorist group from carrying out a devastating attack on the Navy.
As the team tries to track down the terrorists behind the bombing that injured Gibbs, they learn that the terrorist group is planning another bombing of 9-11 magnitude -- and that Gibbs has information about their plan. Meanwhile, Gibbs receives a visit from his former boss and mentor that conjures up suppressed memories. As Gibbs regains his memory, he finds himself on a race against the clock to fill in the gaps and stop the terrorists.