Thanks all for the help and for confirming that this is a known problem.
On the few Keys that I manually deleted, I can confirm that a sequence of steps is required to get the Permissions where they need to be. It was even more complicated if there were both Parent and Child Folders.
I think I first noticed the problem when a Key was Fixed or Deleted but then showed up again in the next scan.
It seems as though in some cases part of a Key might have been removed and other parts remained, but I'm not sure of that. I do recall checking a Key and getting a pop up message that the key could not be opened.
I've also gotten a pop up saying that permissions are out of order and then given options of Fix or Reset which I need to understand.
Could this overall issue be complicated if there are multiple User Accounts on the PC?
That could result in programs being installed by different users with different permissions in each case. In addition, earlier User Accounts might no longer exist.
Thanks, KW