Are you sure you are doing the right thing?
Doing a too heavy recover thingy, or?
I mean Reset in Sonar scan, and do rescan - is what I do.
What kind of issue are you having?
Cannot see plugins in plugin manager?
Never had to fiddle with Waves anything but that.
Sonar finds two waves shell, one for VST2 and one for VST3.
If you start moving these shells around by yourself you might be in for trouble next time you run Waves installer.