Inside the Tibetan retreat of the Red Ninja Clan, Storm Shadow has just discovered that Junko Akita has been brainwashed against him. Jinx & T'JBang have been captured, Billy and Budo fight Slice & Dice outside and Snake-Eyes and Kamakura show up to defeat the Red Ninja's that have turned to the Cobra side. At the end Junko Akita disappears off of a cliff's edge into an underground river. And control of the Red Ninja Clan is returned to Snake-Eyes.
The Red Ninja Clan is returned to control of Snake-Eyes, who then gives the control of the clan to Storm Shadow.
Storm Shadow has finally cleared his mind of the Cobra brainwashing that has plagued him for years.