The glass comes out from inside the car. Mine was (barely) held in with some old adhesive and silicone remnants (!).
Just did this...to put new vinyl on the roll bar. It's a relatively easy job (took me two or three lunch breaks working slowly and with patience). But that included all the exterior roll bar trim, too.
You'll need to remove:
-The backpad from behind the seats
-The top anchoring points for the seatbelts
-The coathooks (push UP on the black plastic covers)
-The side roll bar interior trim (after the coathooks, just one screw per side, hiding under little round black covers)
-The black vinyl trim piece that goes across the top front (interior side) of the roll bar.
The last step is the hardest part, as there are a LOT of tiny screws that are hard to locate with a screwdriver and the trick (thanks Brad!) is to unscrew them until you hear them "click" because they're turning without engaging in the holes anymore. With all the screws out and the piece loose, you CAN get it off the car while the rear top latches are still in place, but it requires careful manuevering and working the top latches into different positions as you go. A second person would be very helpful for this step.
Also, you may have a tough time removing the interior sie trims if the side window rear rubber and aluminum locator track thingies are pinching them. If so, push the rubber up and out (take your time!) and then remove four tiny screws per side.
I hope I didn't forget anything and forgive me if this isn't the definitive guide on the job -- maybe some others have better advice, but this strategy worked for me.
pete
P.S. I decided to spend the dough to have a professional window installer paint on an epoxy base onto the body and then REALLY glue the thing into my car, if only because I wanted to be SURE it would never leak or rattle again. When I got the car back so I could reinstall everything, the window felt like you could lift the car with it...