With only one high-ranking operative remaining, Michael, his boss Raines (Dylan Baker), and partner Max (Grant Show) attempt to extract the final spy, but he commits suicide rather than face the CIA.

Having to return to Miami before being reinstated, Michael struggles with civilian life, constantly checking and re-checking inconsistencies in the documents on Management.

In the fourth episode of the season "No Good Deed", Michael and Max work to steal a piece of stolen information and bring it back to the CIA.

Using data from Korzha's computers they locate the source of his funds, which also allows for them to attempt an ambush, which he anticipates, and kidnaps Sam, demanding a meeting with Michael.

While Michael's team foil Larry's plot and presumably kill him, the explosives used chain-react with a series of others, inadvertently making Fiona responsible for two other deaths.

He explains that the organization was started by him and Management and their intentions were initially simple: get burned spies to carry out questionable missions that would never get through the red tape at intelligence agencies.

Through files obtained through a Washington, D.C. law firm, Michael discovers a connection to his one-time "handler" Vaughn Anderson, formerly with Anson's organization (and arrested in the Season 4 finale).

When Anson's mole on the team is uncovered by Michael, he quickly improvises a plan to extract their target and instructs Jesse to remove the framing evidence.

Robert Wisdom returned as Vaughn for one episode, while Ilza Rosario, who portrayed Beatriz in Burn Notice: The Fall of Sam Axe, made one appearance in the series.

Other guest stars included The Big Show, Dean Cain, Charisma Carpenter, David Dayan Fisher, James Frain, Kristanna Loken, J. C. MacKenzie, Eric Roberts, and Gavin Rossdale.