While helping the Phoenix Foundation test a new missile-guidance system for the government, MacGyver's efforts are hampered by men who are trying to steal it. When the men escape with it, MacGyver turns to his deaf friend, who has been having premonition-type dreams of this happening. Now MacGyver must try and analyze her dreams so that he can find the men who stole the system.

MacGyver's fishing trip is cut short when he meets a very pregnant woman whose husband is out to kill her. Accidentally, she found out that his half-way home for ex-cons is really a recruiting place for new crimes. Mac and the woman are chased into a warehouse where they are trapped.

MacGyver is forced to work with a ruthless freelance agent to rescue a human rights activist who is being held in a psychiatric hospital in Czechoslovakia. The rescue is an apparent success, until the secret police then kidnap the activist's wife to get him back.

Jimmy Kendall, living undercover after testifying against his Mob bosses, surfaces when he becomes the manager for a winning baseball team.

MacGyver and Jack Dalton are arrested in Arkansas by a corrupt sheriff who arrests people to make them work in a labor camp used for mining gold. MacGyver wants to escape, but Jack has other ideas: He wants to find five million dollars his uncle Charlie left in the mines years before.

A desperate physics student goes off the deep end and boobytraps a college lab when he fails to win a science competition and to live up to his father's high expectations.

After returning home from a long assignment, MacGyver has an unwelcome surprise. Jack Dalton is waiting and wants him to help with a new scheme. A wealthy woman has just acquired some invaluable jewels, needing Jack to fly her back to her home in France. Things seem to be going fine, that is, until they land. Jack and MacGyver are arrested and accused of theft.