I had the same problem with both the lid and the hood initially.
I took the bolts out, raised the arms as they relate to the supports and re-drilled an eighth-inch higher in relation to the ground. The lid still fit convincingly into its pocket when it was down, and the extra eighth-inch clearance saved my paint.
I'm pretty sure I would have needed that extra eighth from the get-go if there had been a seal between the decklid and body, but I never installed one after my car was re-painted.
Down side for me was that it flopped up and down more easily, especially in reverse for some reason. I eventually bought another pair of arms -- which I still have -- drilled correctly.
You want 'em, they're yours. Might solve your problem without cheesing your arms up.
A far more impractical solution is to hack the back half of your car off with a recip saw and glass the decklid in. I don't suggest it without a team of engineers and stuntmen present.
This is from the library here on the site:
https://www.speedsterowners.com/library/cmcmanual2/images/cmc34.jpg
(thanks, Theron and Co. -- I have been able to use the library a lot in my disassembly process!)