After escaping from the Maze, Thomas, Newt, Minho, Teresa Agnes, Frypan and Winston are welcomed by Mr. Janson in a protected facility. They meet other survivors from other mazes and they learn that everyday, a group of teenagers is summoned to be lodged in farms and communities in safe areas. However Thomas decides to investigate what happens with the teenagers and he meets Aris Jones (Jacob Lofland). Soon they find that the place is a WCKD facility and Ava Paige (Patricia Clarkson) is alive and the leader of experiments with the teenagers that are intubated neither alive nor dead. Further, his group will be the next to be guinea pigs. Thomas and Aris succeed in escaping with the other Gladers from the facility and they decide to search the resistance group The Right Arm that is hidden at the mountains. Along their journey, they find the post-apocalyptic world completely destroyed; they meet the Cranks, zombies infected by the Flare virus; they have the loss of a friend; they face storm in the desert and a dangerous group of survivors; and they are betrayed by a friend. Now Thomas and his friends want revenge against the WCKD and Thomas promises to kill Ava Paige.