I replaced the panoramic sunroof seals on my 2007 X3 this past weekend. Took about 2 hours start to finish, parts were about 65 dollars for two seals. I replaced the surround seal, and the seal between the two pieces of glass. Mine sounded a lot like yours does.

Mine were hard from age, and the surround seal was collapsed in the front corners. I used RealOem.com to figure out the part numbers. I had to remove the back glass, but other then that it was remove the old seal and clean the sealing surface. I used goo-be-gone, and then a final cleaning with a couple of alcohol wipes.

I did place a piece of masking tape on the roof to record where the seam is. I used a heat gun, but found it was easier to roll the foam back over it self.

The surround seal has a lip on one edge, I found that lining the lip up first and then pressing the seal in place helped with alignment.

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2011 BMW X3 28i (F25)
2015 BMW 328i (F30)
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2007 BMW X3 3.0SI (E83) (Totaled)