I just fixed that very problem on my drivers window. This process will be a lot easier with a helper, can be done by youself, not easy, I know
Pull the glass, and the two glass to front guide holders are prolly floping or they will stay on the track. Pull them off the track or window and (I am not suggesting you do this, but it worked perfect for me) wrap duct tape tightly onto the portion of the holder that goes through the glass. The tighter the better to collapse it and give ther screws something to bite to. Next I put them on the window, tightened carefully and then on the taped side where it goes through the window, I shredded the long tape, pushed it down to contact the window and then put a glob of two part epoxy over the whole works.
You will need to tape the heck out of you door top or you will scratch the living hell out of the paint (ask me how I know
) I also removed the guide bolts and kind of had them (guides) flopping to line the window up easier, once the window is on the tracks, screw it to the lift and line up the top track bolts, then start the bottom track bolts and adjust from there, Including the up stops.
I had trouble with top rear and front lower alignment as well as in and out and the guides flopping, now the thing works like brand new, better even that the manual windows on the wifes focus!
Here is a picture of the holder so you know what I am talking about, I was gonna use it for What the heck is it but figured WTH