Dr. Nicholas Rush and Chloe suffer nightmares following their ordeal on the alien vessel, and Rush suspects that a tracking device may have been placed on the ship's hull. Later, a splinter group on Destiny executes a coup with life-threatening consequences.

Everett and the crew continue their efforts to save Destiny while holding off the Lucian Alliance invaders.

Chloe behaves in a bizarre way, prompting a search of her quarters, where Lt. Scott finds a journal penned in an alien language. Elsewhere, Eli copes with his mother's medical condition.