If I'm not mistaken, most of the windows have a limit switch which shuts down the window motor when it feels sufficient resistance. In other words, most windows hit a stop at which point the motor turns off. There should be physical stops in the hatch that will need to be adjusted. You would have to take off the paneling and locate the stops, adjust them and reassemble. I'll try to see if anything in the FSM shows this. I don't think the motor would be your problem.
Found it. From the looks of it you will either have to adjust the window rail, window regulator, or - if they exist - the window stops:
http://www.ncttora.com/fsm/1996/SIL/...acdoo/comp.pdf
sn0wrunner, it sounds like your window regulator or motor may be at fault. Your window could have gotten off track, then got stuck. If it's stuck, you may not hear the motor try to move it. Worth it to open it up, adjust, and see if it begins to work.