I doubt VGA or WATA has over average quality cases but again, like I said, grading items might be the easiest and therefore the most favorable option to protect games.If you just want the physical protection, there's any number of aftermarket plastic cases, boxes, lockable display cases or elaborate safes you can stick good condition games in. I don't think the cases provided by the graders do anything out of the ordinary on the protection standpoint.
Then again, I really advice against casual collectors moving into prototype collecting and start grading them because the necessary knowledge of the legwork related to that collecting category.
Btw, if you'd bother, I'd really appreciate if you can name/link to some aftermarket protective material sources.
I'm very much in the market for something custom.