Well, the trouble I had with my Precision Pro 'stick was with Need For Speed SE - it recognised the thumbwheel throttle as the accelerator, and the rudder control (swivelling the stick) as the brake. You might imagine, this sort of setup was highly unsuitable for driving cars!
So what I did was retain the settings for using the joystick left/right for steering, but set accelerate and brake as keyboard commands. Then I used the profiler to map the keys to buttons on the stick. It qorked quite well, not ideal, but it was usable. Of course, I later found that NFSSE has a program that lets you force a controller configuration - for my stick, that meant making the game recognise it as a two-axis stick, rather than whatever lunacy itwas doing before.
I thought maybe you'd be able to pull this sort of trick off in MTM2, but maybe it's too sensible to let you mix and match controllers (keyboard for accelerate/brake, pad for steering) like that.
PS. Thanks for the good shout about my trucks
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Drive2Survive's MTM2 Custom Workshop The MTM2 Truck Making Tutorial The BINedit Resource (temporary home)