MacGyver's boss Pete oversees the disarming of a nuclear warhead. A deadly explosion at the disarming facility causes Pete to accept full responsibility and retire from the Phoenix Foundation. However, MacGyver soon suspects that the replacement for Pete is responsible for sabotaging the warhead.

An escaped killer who MacGyver is searching for, is actually the pawn of a mastermind criminal who is still locked up and planning revenge on the female detective who incarcerated him.

MacGyver and the Phoenix Foundation are trying to help a Native American lawyer who's going to court to prevent a power company from building just outside their sacred land. When he loses, MacGyver decides to have some research done via satellite. When the company's rep hears of this, he worries what they might find. In the meantime, the lawyer was about to throw in the towel when an old tribesman talks to him. MacGyver goes to the reservation and discovers that the lawyer has taken arms and is doing what he has to to stop the company. Later, the rep shoots MacGyver in an attempt to frame the lawyer. While the rep chases the lawyer, MacGyver escapes and holes up in an old mine where the old man comes to him. He helps MacGyver and tries to show him what he showed the lawyer. MacGyver, upon seeing it, wonders the vision caused the lawyer to go on a rampage. He tells MacGyver, he probably misinterpreted what he showed him. And he gives MacGyver some information he needs.