MacGyver and the team are in Malaysia to extract a terrorist groups' money man, Ralph, who holds key intel to an impending attack. But when Ralph is shot, the mission goes south, and MacGyver must keep Ralph alive in order to learn the terrorists' plans.
Mac and Jack partner with older versions of themselves, a Russian bomb programmer and his estranged handler, to shut down a Soviet-era warhead in Moscow. But when the antiquated computer needed becomes inoperable, Mac must find a way to fix it with only duct tape and wire.
Using only a wrench and rope, MacGyver must diffuse a bomb set near the United Nations by his old nemesis, "The Ghost", a notorious criminal whose work killed his mentor, and track him down before he strikes again.
MacGyver is tasked to go undercover as an inmate in a maximum security prison to break out El Noche, a notorious drug kingpin, using only batteries and salt, and track him to his cartel's secret location and dismantle it.
Using a screwdriver and bug spray, MacGyver must find the U.S. government mole who is leaking classified intel to the organization that is trying to take down The Phoenix Foundation. Also, Sarah returns to help with the mission, and Nikki reappears, but Mac can't tell which side she's on.
On the way back from capturing a war criminal, Mac and Jack's helicopter crashes in a remote area of Kazakhstan, injuring their pilot and allowing their prisoner to escape with Jack's gun. Using a large blade and a water bottle, MacGyver must get help as the pilot's condition worsens and before the war criminal takes them as prisoners.
While tracking down the dangerous fugitive Aaron Deckard, Mac and Jack face the notorious Colton family of bounty hunters who already kidnapped their mark. Now, using a hook and a car cable, Mac must extract the criminal from the Colton's, who are unaware of the deadly situation they're in. Also, Bozer and Riley try to hack into Jack's CIA file to find out about his history with Matty.
Bozer's first overseas mission goes terribly wrong when Mac and the team are blamed for a terrorist bombing and the Phoenix Foundation is forced to disavow them. Using a ruler and coconut oil to make disguises, the team must avoid authorities and clear their names without any support from back home.
Mac, Dalton, and Cage pursue terrorists who have obtained a canister of deadly nerve gas; Bozer has been paired with Leanna for interrogation resistance training; Riley considers accepting her estranged father's invitation to dinner.
Mac helps a group of researchers trapped in the Arctic Ocean on a research vessel; Jack kidnaps Elwood, only to end up helping him deal with his past; Bozer and Leanna find themselves handcuffed together in a new test.
The partying son of a Serbian war criminal takes his new bride to an exclusive French chateau for their honeymoon, and Matty assigns Leanna to work with Bozer, Mac, and Riley to go undercover and find out where the father is. Meanwhile, Jack convinces Elwood and Jill to help him break into Matty's house to find out what she's hiding from Mac.
Three months after quitting the Phoenix Foundation and moving to Nigeria, Mac puts aside his differences with his father and returns when he hears that Jack is the target of a murderous dictator he double-crossed.
Jack receives an emergency distress signal from one of his old Delta buddies who has been accused of terrorism in a foreign country; he and Mac quickly recruit the rest of Jack's old Delta team and stage an unsanctioned rescue operation.
Mac and Riley must find a way to drive a tanker filled with liquid oxygen through a region occupied by rebels and deliver it to a children's hospital; Riley helps Mac decide whether or not to allow his father back into his life.
When Oversight's attempt to capture a cartel's leader goes bad, MacGyver and Jack rush to Mexico to pull their boss out while racing through the heart of the country during Dia de Muertos celebrations. Also, Bozer and Riley use Halloween as a distraction to gather intel on a man accused of treason.
Matty sends MacGyver and team to Ghana to recover a hard drive from an e-waste landfill that is run by a powerful and violent man. But when Matty refuses to reveal what's on the drive, other than a mysterious file called 'Dragonfly,' the team speculates about what could be so important to her.
Mac and Jack hit the road for a weekend of relaxation in Las Vegas, but their mini-vacation is cut short when someone from their past abducts them and locks them in a concrete room; Matty tasks Riley, Bozer and Leanna with stealing a diamond encoded with terrorist intelligence from a princess in Milan.
Mac, Riley and Bozer go on a weekend of survival training, then they run into a violent group of criminals who are searching for a lost crate of money. Jack and Matty go on a road trip to place Ethan and his family in witness protection.
An international crime boss offers to surrender if he's allowed to return to the United States to watch his daughter walk down the aisle; Mac and the team crash the wedding to ensure the crime lord doesn't run.
The Phoenix Foundation must recover the body of a pilot whose plane crashed while testing an experimental laser mapping system that Mac designed; Riley tries to identify the hacker who tricked a SWAT team into arresting her and Elwood.
Two American tourists go missing while doing a scavenger hunt through some of the world's most dangerous countries; the Phoenix team goes undercover as backpackers to find them and bring them home alive.
Matty's ex-husband Ethan asks her for help when a criminal organization kidnaps his wife and daughter; Matty must decide if she's willing to commit treason in order to help Ethan; Riley joins Billy and Mama Colton on a mission to Paris.
A cunning new adversary's carefully crafted plans force Mac to make an impossible choice: save the life of a friend, or save hundreds of innocent lives; Mac receives new information that will drive a wedge between him and his father.