Absolutely! roll the windows all together with Washed terry cloth towels between them wit a towel on the bottom then the rear window ten towel then a side, towel other side and roll so the plastic only touches towel. and wrap a cord around the ends and the middle. This will prevent kinking glazing or scratching. mine are 7 years old and look like they are only 2 and are constantly in and out and are always handled in this manner, and are simply tossed behind the rear seat when the top comes down or they just come out for air in the summer...
Btw its cheaper than buying a window storage unit that does the exact same thing