Fresh off entering a bargain with the CIA, Michael finds himself alone in the Dominican Republic. His mission is to infiltrate a terrorist group. Elsewhere, Sam is planning a party for Elsa, Jesse has returned to work at the security firm, and Fiona has become a bounty hunter. Westen's team is soon drawn back in via a new threat to his life.
Michael returns to Miami to track down someone who is trying to blow his cover; Michael is forbidden from contacting his crew.
Sam and Jesse travel to the Dominican Republic to help Michael with a high-stakes trade; Fiona intervenes when a bookie tries to extort Madeline.
Michael tries to learn about Burke's underground network; Fiona and Madeline must frame a corrupt Russian bureaucrat for treason.
Michael meets a former Russian operative who now works as part of Burke’s mysterious organization. In order to get out of Cuba, they’ll have to outwit a bloodthirsty counterintelligence expert who’s locking down the island. Strong convinces Fiona to help Michael’s mission by making her an offer she can’t refuse.
Michael and Fiona pose as hackers at a malicious programming syndicate in order to steal information for Sonya. But Michael’s life gets complicated when working with Fiona again brings back painful memories. Meanwhile, Sam and Jesse help Barry track down a former girlfriend in exchange for falsified documents.
Michael finally meets with the head of the organization he’s been assigned to dismantle, but things get dicey when the leader drugs him at gunpoint in order to learn his deepest secrets. In danger of exposing his cover, Michael soon realizes that in order to protect his future... he'll have to face his past first.
Michael goes after a drug smuggler at the bidding of the organization he's trying to infiltrate. Elsewhere, Fiona, Jesse and Strong visit a mental hospital in a search for more information about James.
The team look for an antidote at the manufacturer's lab in order to save a poisoned Middle Eastern diplomat. Elsewhere, Madeline takes action when she suspects she's being followed.
When Michael discovers an old friend digging up secrets that could expose his cover, he must decide just how far he will go to protect the mission. Meanwhile, Sam and Jesse are thrust in the middle of a street war involving a decade-old murder after Fiona’s boyfriend is targeted by a coldblooded gang member.
As Michael becomes ever more conflicted with his mission, he travels to Mexico with Sonya in order to help James with an important job. Anxious to finish the operation, Strong hires freelance mercenaries to extract James on site... but brings along an unexpected guest.
Michael is forced to expose his identity to James; Fiona and Jesse fear he is in over his head.
The final episode in the series finds Michael struggling to regain the trust of those whom he betrayed, while James works feverishly to bring him down.