In a series of flashbacks, we learn how and why Jason Higgins was raised to be the leader of the first generation and favored child of Wayward Pines. Meanwhile, Nurse Pam resurfaces and becomes a lethal threat to the town, and Theo continues to dig deeper into why he was specifically chosen to be part of the population of Wayward Pines.

The Abbies attack CJ and the harvesters, leaving Teresa in grave danger and the town dangerously low on food supplies. Then, Theo constructs a makeshift triage unit, but he may not be able to repair his marriage to Rebecca. Also, Xander still has some fight left in him as Jason questions his abilities to lead.

Pilcher recalls finding his Chosen One. Then, as the Abbies close in, Jason makes a fatal judgment call and Theo and Xander must put aside their differences to stop him before the human race is lost.