just finished watching the season finale....that was probably one of the best episodes everrrrrrrrrrrr!
here's my take on the whole thing: CIA wanted to break up The Unit and Bob was probably their best man to approach (compared to the others since Brown isn't exactly as mobile with a baby). and like most of the episodes, The Unit always have some sort of plan. so i'm thinking that there had to be at least two guys (Mac & Hector) in "jail" ...which should be a piece of cake for them as compared to the SERE episode. Jonas flees so he'll be able to figure stuff out on the "outside", plus maybe set-up another HQ for them. Bob gets in with the CIA, but truly is a "Unit Man" so he'll be the "inside man" on what's happening. Gray is "missing" but i'm guessing the plan is he'll be the go-between between Jonas, Bob & Ron.
i doubt Bob is really going to try to locate Jonas for the CIA. somehow he'll probably collect on that favor he's owed from that NSA exec when he saved his daughter.
i'm not sure what will happen with Col Ryan. the finale made it seem like he was going to commit suicide for losing his job & his wife, although at this point, he's the most expendable member and him pulling the trigger could go either way.