The corner seals of my front windshield are sticking up a little. I inquired about this a couple years ago. Most people said if it doesn't leak, don't worry about it. But since yours leaks, I would worry about it. If I am not mistaken, I the rubber seals are not sealed to the body. Might be, not sure. But since it leaks, I would make sure to seal it. I would use 3M window sealant and lift the seal around the top edge of the windshield, and seal it up. That should work...

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1997 GTP - 200k+ miles, PEMs, 3" SS Exhaust w/ Borla Mufflers, 3.4", 180* stat(summer), FWI, 1.84 RR, PT, SLP hood, KYB GR2s, GMPP Handling Kit, etc...