It would not be under the root of 'Software' it would be \Software\Stardock\Groupy
If you have no \Stardock either, that is even more puzzling (I thought you said you had one for Fences?).
This is what you should have and I just tested on a clean box - reg files are (of course) created on install without Groupy first use:

olidie, are you running anything that would not allow 3rd party apps to write Reg files (non-admin account using Admin privileges to install, AV product, anything)?
Is a clean boot possible, under a new Admin (<--important) Windows account, possible?
https://support.microsoft.com/en-us/help/929135/how-to-perform-a-clean-boot-in-windows
Sean Drohan
Stardock Support Manager