The Phoenix must recover the body of a pilot whose plane crashed while testing an experimental laser mapping system that MacGyver designed. Meanwhile, Riley tries to identify the hacker who tricked a SWAT team into arresting her and Elwood.
After a surprising introduction to Phoenix's latest recruit, MacGyver and the team are tasked with protecting a gun-sniffing dog who has had a bounty put on his head.
MacGyver and the team try to solve a locked door mystery, when a man disappears from a remote, ultra-secure international seed vault.
When Nicholas Helman resurfaces to carry out a killing spree, the team are forced to get help from the one person who knows him best: his protégé, Murdoc.
MacGyver and Desi try to help a group of Syrian refugees who are being targeted by human traffickers; Bozer gets trapped in Oversight's car.