The crew of the "Nautilus", a battered Starship of mysterious origin, is beamed aboard the "Starship Enterprise". The group claims they are freedom fighters from the future working to save the federation from the Consilium - a group of corrupt power-seekers.
But when the "Nautilus" crew members suddenly seize control of the "USS Enterprise" and a starship from the future arrives to arrest the renegades, Kirk must separate his true allies from those who wish to destroy the federation.