After losing Claire to Joe's followers, Ryan and Parker attempt to recover while the FBI tracks down an undercover location that may have dark ties to Joe's following. Meanwhile, Claire adjusts to life at the follower's mansion and has an unexpected reunion, while Emma and Jacob continue to deal with Emma's betrayal.

Ryan and the FBI discover a follower who might be able to lead them to Joe Carroll's location. Agent Weston returns to the case but his run-in with the cult may have had a bigger impact on him than anyone originally thought. Meanwhile, Claire and Emma come face-to-face for the first time since Joey's kidnapping.

The Havenport Police Department is brought onto the case and Roderick's role as sheriff is called into question, which leads him to make a shocking decision that threatens the safety of Joey. Meanwhile, Ryan goes against the FBI, hoping to gain the trust of one of Joe's followers.

Ryan, Parker and Weston prepare to storm the follower's mansion, but Joe already has an escape plan in action. Meanwhile, disguised followers create a diversion at the town evacuation center, which causes panic among the residents and leads to a dangerous kidnapping of one FBI official.

In the explosive Season One finale, Ryan races to stop Joe Carroll before his endgame reaches a deadly conclusion. Meanwhile, Joe leads Claire to a special location and the ultimate showdown between good and evil takes place.