[Myxale]

Hard to tell what crashes your game, since you do not use the Mod-Enabler to show the load orders.

You sure you installed ti properly? Most of the game-relevant data, like campaign, ships and so on load after the the main screen.

On a side-note:
AFAIK the enabler has an ini file, where you can enter your custom install-path. SO you should be able to use it with the steam version too!"
I'm not at home so I can't double-check. Somebody please confirm.