why did you need to remove the bolts? Is the hinge broken? Pop the door off both hinges and take it inside to a bench-remove the inner 'lining' and run the window all the way up. You should be able to get a pair of vise grips onto the nut for that bolt from the inside, then stand the door up so you can put the tool into the bolt head and remove it. Probably you knocked the inside nut apart from the welds tightening it too much.