A huge dark mass collides with the Taelon Mothership, knocking everyone on board off their feet. As order is restored, Ronald Sandoval (Von Flores) is shocked to see Zo'or (Anita La Selva) standing like a statue on the ship's bridge, having been sent into a strange form of stasis by the collision.

Back on Earth, Liam Kincaid (Robert Leeshock) and Renee (Jayne Heitmeyer) appear before a presidential committee chaired by Hubble Urick (Frank Moore). They present video footage of the atrocities inflicted by the Taelons since Zo'or took control, including the annihilation of the Caya Islands by a Mothership induced tsunami, before asking the committee to speed up efforts to have Zo'or ousted. More specifically, Liam suggests a coup that will restore Da'an (Leni Parker) as the Taelon leader. A captain suddenly interrupts the meeting to bring news of the Mothership's accident.

With Zo'or and the other Taelons on board the incapacitated Mothership, Sandoval tells his cohort, Frank Tate (Richard Zeppieri), of his plot to take control of the ship. Meanwhile, Liam meets with Da'an at the Taelon embassy, and they discuss the situation on board the Mothership, which is no longer carrying out its usual self-healing process. Da'an says that the mass must have been dark matter, a substance from the "anti-universe" that slows down time for Taelons within its proximity. It freezes them in a kind of stasis, and the ship must be confusing it with the self-inflicted stasis that Taelons usually apply before a long journey. He tells Liam that the dark matter must be expelled, or else it will slowly devour the ship, killing all onboard.

On the Mothership, Sandoval tells Tate that now is the time to enact revenge on the Taelons for killing his wife and destroying his birthplace. He intends to recall all of the Earthbound Taelons to the Mothership where they will fall into the state of stasis and be at his disposal. After killing all of the Taelons, he intends to strip the ship of anything of value and send it on a direct course for Jaridia, home of the Taelons' mortal enemies.

At another meeting of the presidential council, Urick is ecstatic that they may finally be rid of Zo'or. Liam, however, does not think that all of the Taelons should die in the process, and meets with Da'an hoping to somehow get him onboard the Mothership so he can regain control. Da'an points out that he too will become incapacitated if in close proximity to the dark matter. Liam devises a plan where he and Renee will accompany Da'an on a shuttle that will take them close to the Mothership. He will then fly ahead in a pod, entering the vessel and using a photon bomb to get rid of the dark matter, clearing the way for Da'an.

Liam's plan works, but only to a point. He finds that the dark matter onboard the ship is adjacent to the Taelon's stasis chamber. If he detonates the bomb, he will kill everyone in the chamber. Liam is suddenly interrupted by Sandoval and Tate, who take him prisoner. When Sandoval attempts to detonate the bomb, he finds that he needs Liam's failsafe authorization code. As he attempts to get the code from Liam, Da'an transfers some of his Taelon energy to Renee, allowing her to enter the Mothership and trigger the ship's self-healing system. Sandoval leaves Liam with Tate to get a CVI device that will make Liam reveal the code. With Sandoval gone, Renee sneaks up behind Tate, knocks him out and frees Liam. Renee begins to grow weak as the Taelon energy inside her reacts to the dark matter. Liam transports her to safety via a portal.

The ship begins its final shutdown phase, bringing imminent death to Liam and everyone onboard. At the last moment, Liam's extraterrestrial father, Ha'Gel (Victor A. Young), appears and tells Liam that he must use his alien Kimera energy to save the ship. Ha'Gel warns him that by using the Kimera energy he will become fully human. The choice is a simple one for Liam and he touches hands with Ha'Gel. A burst of light consumes the dark matter, which disappears. The ship and all on board are saved, but Liam has become completely human.

This episode synopsis was originally produced by The Official E:FC Website and remains the property of Tribune Entertainment.