FTWK does not offer Turbo switch, which is invaluable in troubleshooting unstable system. Just to name one little detail why Classy over FTWK.
And if you're into liquid cooling then there is a Bitspower waterblock kit. So that's #2 reason.
M.2 slot working in Gen.2 mode is inconsequential. Unless you doing sustained transfers all the time or recording multitude of HD video material nobody will ever notice that transfer is capped at ~1600MB/s. Certainly not a gamer. I mentioned this couple times already and I'll repeat that once more. I was working with i750 400 GB on X58 and it was more than fine. Recording video was less streamlined than Gen.3 (from lack of better expression), but everything else, including VM, was perfect.
Returning to original question. Is it worth it?
For CPU bound tasks and games - hell yeah it's worth it. I'm one of X58 converts and there is vast chasm performance-wise. For gaming I'm not as mad to get 2 Titans as one 970 runs fine everything I have with plenty of room to spare. Of course for 2nd Classy build I will consider 1080Ti, but only that.