This has been posted before but saved games on the Peninsula Corridor do not load properly (station stops just disappear). This might be an issue for the other routes as well. LIRR, apparently does not suffer from this. Sand Patch suffered from it. You literally ahve to do it all in one go (takes about 1:45 if you're running an all stops scenario, 1:00 for limited and 45 minutes to an hour for express).
