Three months have passed, now mobilized the 2nd Mass. persists on the run without Tom, but a flaw makes them prey to attack. Tom sees the traps of good and evil on the long road home after fleeing, but questions of his escape go unanswered.
Tom is still haunted by memories of his time with the aliens and begins to wonder if they did something to his mind. Pope, who is in charge of questioning Tom, plants seeds of doubt about him among the group.
Hal stumbles across bodies of de-harnessed kids and finds someone from his past. Tom and Anne grow closer. And Weaver's health deteriorates just as Tom discovers he may have been keeping important matters from the group in order to protect them.
Ben is placed in harm's way by someone who he thought he could trust. Tom captures another hostage. Weaver offers Matt a job to lift his spirits and make him feel useful. And when members of the 2nd Mass are trapped in the basement of a building, the situation takes a turn for the worst when they find themselves faced with a new enemy.
The 2nd Mass pushes on to Charleston, but some are still grieving the group's recent losses. Weaver learns more about Tector's background before the invasion. And Matt begins to bond with a harnessed girl who was found recently.
When skitters approach the newly combined resistance force, the groups' interaction surprises everyone. Meanwhile, Tom finds out life-changing news just as the 2nd Mass comes face-to-face with their most dangerous threat to date.