I was having this same issue for months, after trying everything you have tried, I loosened the top bolt that is holding the rear clam shell to the frame one turn and the noise went away. I also cleaned in between the rear window and the rear tailgate.every time i’m at about 20 mph or higher, my passenger side roof squeaks extremely loud in between the driver and passenger door. i’ve greased every area of the roof, all hinges and joints, and still can’t get this squeak to go away. any ideas?
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