soundofmind: I tried your method, and it didn't work, unfortunately. The controller worked for the mouse curser control when not flying (i.e. when you're in your base), but no response when flying an actual ship. The game still registers the keyboard arrow keys for inflight control!
I tried one way by going into the DOSBox key mapper and changing the arrow keys to the controller left stick, and then tried the second way by doing that and deleting the mapping for the joystick as well. Both times, when I pressed an arrow key in the joystick config in the game, it just exited the config. Any ideas as to why this is? Also, when I tried mapping different keystrokes (like T for target to the Y button on the controller), nothing worked.
This is driving me crazy, the DOSBox mapper really sucks.
It's really odd how I did it and it's hard to describe. Basically you have to map the joystick axes to the keyboard, calibrate, then remap the axes back to the joytick and the arrows back to the arrow keys. If you don't set them back exactly as they were when you're done calibrating, it won't work.
Actually I think you did it right, but didn't set the game to joystick mode. In mission; press alt-o and set controls to joystick. For some reason, you can only do this in a mission or training simulator.
Also, sorry the link isn't working YaTEdiGo. The topic I posted in is in the wing commander forum page though.