Hmmm... well earlier today I was thinking about Apple's coding of the check for FV2 being disabled before installing Mojave. I was wondering if they actually prevented it from being turned on after the install is complete. Sure enough, they absolutely do (as of PB6)--both via the GUI (System Preferences>Security & Privacy>FileVault) and via the "diskutil apfs encrypt" terminal command.
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If they don't figure out a way to enable boot screens for the 560 & 580 then those blocks are almost 100% going to stay in place for the GM. If so, that will be a real hindrance to people who own a "Mac Edition" 7950 or GTX 680 (or one of the unofficial flashed versions of those cards), in addition to people like myself who paid big bucks for a MVC-flashed Maxwell card. Even though we *will* have boot screens on Mojave, it seems Apple will prevent us from using FileVault2 as well.
Just in case, can someone who is using a 7950 or GTX 680 with Mojave try enabling FileVault (if it even lets you--which I doubt--you can immediately cancel if you don't want to use it) just to make sure that Apple isn't somehow checking the installed GPU? I mean I really doubt they coded the block that specifically, but I am not able to test it since my only EFI card is a 750 Ti and there are no web drivers for Mojave yet.
Assuming users of those cards are also blocked from enabling FV, then I think this is yet another bug that should be reported. Apple should not be restricting that feature from users who have cards perfectly capable of using it.
There may be workarounds (like encrypting the drive on another Mac and then moving it back over to the cMP), but who knows if that could raise other issues as well.