Jane and Lisbon decide to keep their new relationship a secret from their colleagues as they investigate the murder of an undercover agent. Also, young, ambitious agent Michelle Vega joins the team.
Lisbon goes undercover as a prison inmate in order to get a convict to turn on her boyfriend, who is the leader of a high-end car theft ring.
Jane and Lisbon travel to Beirut where they must work with Jane’s familiar adversary, Erica Flynn, who agrees to help the FBI apprehend her boyfriend, a courier for terrorist organizations, in exchange for amnesty for her past crimes.
The team investigates a murder linked to a counterfeit diamond operation, but an illness forces Jane to direct his colleagues from the office as he recuperates. Meanwhile, Abbott is concerned that transgressions in his past could harm his wife’s chance to obtain a prestigious job in Washington, D.C.
A chance encounter with a military colonel leads Jane to believe the soldier is hiding something, leading him to dig into the closed murder case of the man’s wife.
The FBI is brought in to consult on a botched DEA raid, but when Abbott’s former boss tries to blackmail Abbott into keeping the agency’s missteps quiet, he is forced to choose between his career and morals.
A murder investigation becomes personal for Lisbon when she learns that her underachieving younger brother, Jimmy, is being sought as a key witness.
Jane worries for Lisbon’s safety when the team puts itself in the line of fire to protect the witness in a murder investigation from a skilled assassin.
When Abbott’s old boss, Agent Peterson, threatens Abbott’s career – and possibly his freedom – Jane devises a risky plan to protect his friend’s future.
Jane takes extreme measures as the team tries to apprehend a deadly gang of armored car robbers before their desperation to remain free costs more innocent people their lives.