Medical Officer Ratchet gets an opportunity to have his peaceful time with the Mane 7 and Spike. However, Chrysalis returns with revenge as she creates a band of evil robotic clones to destroy both Ratchet and his pony friends. Ratchet must lead his friends to victory as they confront their returning foe.

Note: This takes place after Transformers: Revenge of the Fallen and during the events of MLP: FIM season 8 episode 13: The Mean Six.