I "escaped" the fort by teleporting past the guards at the docks, but I came back in to finish up a few missions and found that anytime a patrolman walked by the whole of Fort Joy became hostile to me. I have no hostility meter up on my character (where is that thing anyway, can't find it anymore) and everyone still has a collar, so I'm guessing that I'm flagged an escapee. It kinda sucks because I didn't realize I was "escaping" at the time, just got a big xp bonus for a new area and never saw the other notice, if there was one.