I didn’t have this problem with 9.0.10, but then had it after updating to 9.0.20.
I went through an hour-long orgy of clicking to get it fixed, so I can’t exactly say for sure what worked, but I think it was moving the 64-bit plugins from the (X86) folder where Waves had put them, into the the same folder that all my other 64-bit plugins were, then rescanning. After that, the plugs were no longer blacklisted.
Hope this helps!