Not much is revealed about the program or the corporation behind it, other than it's a non-profit in Iowa, and has been around along time.
When the Director decides to flush the town, the captives escape by pretending to kill each other (it actually worked better than that sounds). Everyone gets away but Joe. Unfortunately Iraq Soldier guy is captured and tortured to reveal where everyone went. We learn that Janet's mom is indeed involved, but has tried to protect her from the program. Obviously this was set up many years ago.
Anyway, everyone is eventually recaptured, and they wake up back in the hotel. There are two groups, one of new people (including reporter guy), and one of the old crew. The new group is led by Joe down one elevator to the lobby where the Ambassador's daughter is now the Night Manager. The others go down another path, and end up on a giant freighter ship. The original Night Manager greets them, saying "Welcome to Level Two". Fade and cut.
Oh and it is implied, but never directly said, that big dumb guy is actually one of them. And Editor chick is in some nasty cage obviously about to be "disappeared", along with the Ambassador.
There was more but I think I'm over my 100 word limit.