
After Zartan announces that Cobra will replace the Joes as America's main protective unit, Lady Jaye deduces that someone is impersonating the President and Roadblock leads them to General Joseph Colton (Bruce Willis) who provides them with weapons and helps them infiltrate a fundraising event that the President will be attending, where Lady Jaye steals a sample of his DNA and confirms that he is Zartan. Roadblock, Flint, and Lady Jaye return to the United States where they set up a base of operations in a rundown gym. Upon learning that he is alive, the Blind Master (RZA), leader of the Arashikage Clan, sends Snake Eyes (Ray Park) and his apprentice Jinx (Elodie Yung), Storm Shadow's cousin, to capture Storm Shadow so he can answer for the murder of his uncle, the Hard Master. Storm Shadow is injured during the escape and retreats to a temple in the Himalayas to recover. He escapes and is joined by ex-Joe Firefly (Ray Stevenson) who both rescue Cobra Commander (Luke Bracey), but leave Destro behind. In secret prison facility in Germany located mostly underground, Storm Shadow (Lee Byung-hun) allows himself to be captured for killing the Pakistani President. Cotrona) and Lady Jaye (Adrianne Palicki) are the only survivors. Most of the team is eliminated in a military strike with Duke (Channing Tatum) as one of the casualties. Unfortunately, the Joes are framed for stealing the nuclear warheads by Zartan (Arnold Vosloo) who is impersonating the President of the United States (Jonathan Pryce) since the events of G.I. Joes are sent in to retrieve Pakistani nuclear warheads before any go missing. Later, Pakistan is in a civil war after the death of its President. While they succeed, Flint takes the victory a bit too far, hanging the flag of the Joes in place of the North Korean flag.


In the Demilitarized Zone of the Korean Peninsula, Duke leads Roadblock, Mouse and Flint to find their North Korean mole.
