In the Middle East Willy and Barney infiltrate a chemical plant to gain access to Dehominant-B, a quick-acting lethal gas. Barney is exposed to Dehominant-A while trying to get to the computer and crippled - Willy escapes and Barney is captured. Barney is interrogated and only has four hours to live. The team find out that Dr. Jerry Carlin, a dropout, is the only other person with the skills to access the computer. When Carlin rejects the team's appeal for help, Jim and Paris frame Carlin's girlfriend and threaten to keep her in jail unless he helps them. Dana provides a distract and Paris takes the head scientist Vazan's place and have Barney first fake a confession implicating the technicians and then his own death - they get Barney to the autopsy room where Doug revives him in the nick of time. Jim and Carlin take the incriminated technicians' place and Carlin manages to ruin the Dehominant and erase the computer, then everyone escapes with Vazan.

The IMF must rescue three scientists in a dictatorial country and destroy their notes. They rescue two but the third one, Khora refuses to leave and is executed. Jim and Dana meet with his son Alex (a rebel leader) to get his notes and Dana is captured by the militia along with Alex's girlfriend, who has memorized the doctor's notes. Barney and Doiug parachute in with a giant hollow religious statue that Jim uses to get close enough to dig into the prison while Paris, pretending to be an Intelligence officer, plays the militia leader, Bakram, against the people. When Bakram discovers that the prisoners have escaped he destroys the statue, further enraging the country's people against him while the team make his escape.

After completing a mission Paris is undercover as an American businessman and still in disguise when he is kidnapped by Latin American revolutionaries led by terrorist Robert Siomney - they ask for the release of three prisoners in return for Paris' life. Paris fakes a disease forcing the government to drop medication, which the IMF has planted a tracking device in. Once they know where the revolutionaries' compound is, Jim fakes the exceution of two of the prisoners, putting pressure on the revolutionary leader Jorge Cabal since his son Luis is the third prisoner. Dana poses as Luis' girlfriend to get close to Jorge so Siomney orders her covert death to keep Jorge on track - Barney takes the killer's place and rescues Dana. Then Jim fakes Luis' death as well - Barney fake-kills Paris and then they reveal that Luis got a last-minute reprieve. With nothing else to bargain with, Jorge turns over Siomney, Barney in disguise, and the ""dead"" Paris in return for the government commuting his

Phelps must stop Charles Peck from using violence, created by professional provocateur Billy Walsh, to elevate his puppet, Mayor Steven Tallman to the governorship. Dana is a provocateur herself, arrested by Barney the current governor's representative. Walsh gets Dana out, and Paris is a blackmailer who convinces Tallman that Dana is his previously-unknown illegitimate daughter. Peck is concerned that Tallman (actually Paris in disguise) will confess their plans to save his ""daughter"", and orders Walsh to kill Barney and Dana. Barney stops Walsh on TV before he can blow up a crowd of demonstrators and police during a protest, and Paris-as-Tallman confesses to Peck's involvement.