Wow! In that case, raising the transom is a very good idea. You might also want to talk to Don Herman, Hermco, and have him make a splashwell for your motor well. He's in the process of creating a mold for earlier 20' CCs. I believe you have a different transom, but he still might be able to help you out.
Even with a 25" transom, you still run the risk of water intrusion under certain conditions, and the splashwell (a SC design) is critical.
Good luck with your boat.
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1971 20' Seafari, 3.0 Merc. I/O
Peterson 1819 Aluminum single axle trailer
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