Somehow after the events of the defeat of the Demon Shredder and the year the Turtles were stuck in the future in "Fast Forward", Khan gained control of the Foot, who now dressed in Cyber Foot armor. Under Khan's rule, they were in a gang war against Hun and the Purple Dragons. Once Cyber Shredder appeared, he took control and it was Khan's mission to bring him back into reality. Many believe Khan was once an Elite Foot since his theme is the same theme used whenever the Elite Foot appeared.