moscowexile......It sounds like you have conflicting mods installed. Might I suggest you uninstall them all, then reinstall GWX, enabling only those mods that are supplied with GWX.
After that, I'd suggest any additional 3rd party mods you wish to use are installed only one at a time and the game is played after each install to ensure there is no conflict.
I would also advise you only use mods that are compatable with JSGME and that you back up any files your about to alter beforehand.
On the issue of saving whilst submerged.....DON'T, the game engine does not like it for some reason unknown to us all. Nor should you save whilst surfaced if your within approx 100km of a port because the port traffic lose their waypoints and tend to run aground or crash into each other. Another quirk of the SH3 game engine.
Good Luck
