I noticed that the sunroof is not sitting perfectly flush with the roof. It is lowered like an 8th of an inch, no leaks yet, but I dont want to wait for one either. Is there any way to adjust the glass sits without having to take the whole roof apart?

 

Yes. On your sunroof (inside the car) you will see two black covers on the sides of the glass. Remove those covers. Under the covers are bolts. A front bolt and a rear bolt. You can put shims in the rear bolts and the glass will rise.

Just make sure you dont put too many shims in there or else the roof will leak. If you do raise the sunroof glass make sure you clean the roof where the seals will contact. If the edges are dirty you will scrape up your seals. Good time to put some Lithium grease on the linkage as well.