I think that thread was lost on the old site but the short version was the trunk seal was just wrong in every way. First, the factory seal is a straight run, obviously not meant to turn corners, and it must be cut in order to bend. Second, the seal is just too thick, and the lack of holding force on the top edges is causing the hood to pop up at the corners, (if there was a latch on each corner rather than a single one in the center this would not be a problem). I tried sitting weight on the edges to get the seal to take a thinner profile but that didn't work and I wasn't going to wait years for time to do that.
There are 3 ways to do this, the first is to lower the latch in the tub. This puts a lot of additional strain on the latch and release cable as the hood now sits very tight, so it will take a little more pull to pop the hood. The second is to shim the fenders. I didn't like the sound of either to fix what I thought was a "special t" type of seal...in other words it should have never been used by the factory. I removed the seal completely and closed the hood...perfection. Once I determined it was the seal, I went to lowes and bought 2 rolls of universal weatherstrip used for door and window seals. It's very soft so it goes around corners, it's low profile, and it has an adhesive backing. After cleaning the old residue off, I applied the seal and closed the hood to allow the adhesive to set. I then drove the car several days including a washing to make sure it was watertight before posting about the mod.
I seem to remember something about there being 2 thickness of hood seals sold, but the fact that they were very wide straight runs with no pre shaped curves made me source something myself. Plus it looked a whole lot better than a factory seal.
My hood was not sitting as high as yours however, it stood up around 3/4" on the driver side..passenger side was fine. You may need to do all three fixes to line that one up. I would first determine the hood itself was not at fault, if not, I would start with the seal.
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