I also am using a Logitech Extreme 3D Pro and am having the exact same problem.
Works perfect with all other planes....NOT the CRJs. Played with the Throttle Calibration tool in the EFB for hours....nothing. Here's a question ....why does the CRJ require this calibration tool when absolutely none of the other planes need any calibration....I think that;s the clue. It's a mess!!!
Another annoying problem is ofter when I load the plane it is cold and dark although set to start ready to taxi. Unfortunately the EFB is also COLD AND DARK.
I have now just walked away from this piece of shit. Dont need the agro.