Michelangelo's strange dreams lead him to seek out Mondo Gecko, a lizard who was caught in the same ooze as the Turtles. Gecko eventually rebels against his boss, Mr. X, and his bombing campaign.

A delivery boy accidentally falls into Krang's new unstable Mutagen and becomes able to transform into anyone he chooses. Shredder tricks him into helping him launch the Mutagen into space and mutate the world, but this "Mutagen Man" has other ideas.