I've just asked superchips if they can map it out or change the tolerance.. Ross tech told me the tolerance is 2% so if the motor moves +/- > 2% past expected the light is on and the motor is disabled. I feel it is a manufactured way to get customers back in to part with cash. I have noticed no difference to mpg with disconnected motors.. Maybe a little would be seen in town driving but for that money you'll put a lot of diesel in your car.
The reason it knows there is a problem is because the motor relies on the end stops of the flaps to give it it's position (If you disconnect the motor will move further. Now if the end stops were in the motor then the problem would never happen. Only danger is if the flap actuator broke it wouldn't know.
I'm all for mapping out and throwing the motors in the nearest bin