When the F.B.I's special assistant Howie claims to have nearly escaped being shot, Jack and the team are skeptical as to the legitimacy of Howie's story. However Howie's tale becomes more and more plausible as other killings arise, all linked to Howie's incident.
Seven Eastern-European terrorists in the D.C area are under suspicion from the F.B.I team who have linked them to an underground organ dealing business. In the meantime, Sue and Lucy struggle to live with Nina, their unannounced, and very picky, house guest.
When a radical environmentalist group blows up an SUV, the F.B.I looks into the case with the help of a victim from one of the environmentalist group's earlier fires. Meanwhile, with his cholesterol off the charts, Myles decides to make some changes to his dietary lifestyle.
A special undercover agent from San Diego comes to D.C to assist in an operation involving street drug dealers. But Jack quickly becomes annoyed with the new agent when he starts to show interest in Sue.
A famous actor visits the F.B.I to observe as the team tracks down a gang involved in selling fire arms. Later when the team gets word of a possible terrorist threat, the movie star begins to show interest in Tara.
When several 30-year old women are murdered in a similar fashion, the F.B.I team suspects a serial killer. At first their chances of catching the killer seem bleak, but then the murderer makes contact with Sue and leads her through his own game of Simon Says which will lead them all to him.
When the husband of Sue's friend, Carol, is killed in a boating accident, the team begins to look deeper into the couple's marital history. Meanwhile, Bobby and Myles escort two witnesses on a long, and troublesome, road trip to Arizona.
Sue and the rest of the team investigate the death of a prominent Senator's son during a college fraternity hazing. But what appears to be an open and shut case of alcohol poisoning takes a surprising turn. Meanwhile, Sue gets a lesson in instant adolescent parenting when Amanda, Sue's twelve-year-old Deaf friend, spends the week.
Continuing their investigation with a newly missing informant, the F.B.I must try and find amnesia-stricken Jonathan as his memory slowly returns, giving him more and more clues that may put an end to the case.
When a young woman is kidnapped in broad daylight, Sue and the rest of the team are introduced to Mind Profit, a cult that believes in bringing a person to their true self and has been the link to some mysterious disappearances.
After a small plane crashes in a Virginia field, the team discovers the burned plane contained one million dollars and a small drug stash. In the meantime, Randy enlists for Sue's help in preparation for his date with a deaf woman.
After a sophisticated millionaire attempts to rob a bank and is shot down by the police, the F.B.I team investigates further into the businessman's life and find designer drugs at the heart of it. Meanwhile, Sue and Lucy have Levi photographed for dog food advertisements.
Sue and the rest of the team are shocked when Sue's long time informant Troy is arrested for robbing a convenience store. Darcy informs Bobby of a new job offer she's received in California that will force her to move, if she takes it and Myles's recent jaw injury is giving the rest of the team a break while Myles remains silent for five days.
While battling against their very young, inexperienced new supervisor, the team investigates the alleged murder of a senator. However they're not sure whether or not to believe their witness, a schizophrenic who often sees things that are not real.
Sue has mixed feelings when she's offered a promotion in New York and must decide whether to leave behind her friends and home town or whether to give up a great job opportunity. While she decides, the team hunts down a hacker who has taken control of Jack's credit card.