Instead of dwelling on the whole Thomas is supposed to get killed thing, the boys are all distracted by a loud alarm going off. It's the same one that used to alert them that a Newbie would be joining them in the Glade.
The kids run around and try to shut it off, but their room is locked. Ugh, again with the locked doors.
Then, suddenly, the alarm stops. Huzzah.
After the kids regain their senses, they realize that their door has swung open and someone turned off the lights again.
Whoever these people are, they're really manipulative.
Minho decides he'll search for the light switch; after all, he is the leader.
Minho finds the light switch, but when the lights come on, the boys realize the dead bodies are all gone. Oh, and the smell is gone, too.