Been playing some of the FSPort with this latest build. It's certainly behaving weirdly - particularly the first mission where you encounter the shivans. 'H' will target anything, including your own wingmen, the cruiser you're supposed to escort shoots at you, the shivans don't attack the vasudan fighters, the vasudan fighters don't do much of anything, and the shivan bombers seem incapable of blowing up the cruiser like they're supposed to. Might be the flag mentioned above, but it's certainly not what the mission is meant to be doing.
Incidentally, the problem where OpenGL mode doesn't correctly reset brightness upon exiting is back.