Yup - sometimes you gotta step up 'yer game. And it's certainly worthwhile to try something a little more drastic before just replacing. Always a good idea to start less aggressive first, though, Goose.
One tip, for the future... regular cleaning and use of a protectant (like 303) will help to keep the mold from coming back. Mold is MUCH less likely to grow on a clean surface. On my Grady, I get mold on some of the fiberglass because I don't wax it or clean it that often. It's more of a "workboat", though. On other boats that I have, I keep them waxed much better and I never get mold on the fiberglass (or the vinyl, for that matter). Some of this comes down to environmental conditions, as well.