Hi, Paul, and welcome to the DonationCoder site.
Hey thanks for the awesome program. I use it everyday.
You're welcome; I'm glad you find it useful.
1. I manually entered a string value with a location to my Files2Folder.exe to use it's icon. Looks more nice in the context menu. Maybe ask users upon installation?
I'll consider this. Which hive/key/value did you add?
2. Doesn't work with items on my desktop.
May this have something to do with them being shortcuts?
Correct, the program doesn't work with .LNK or .URL files. However, for me at least, regular items seem to work fine on my desktop. Keep in mind that I have UAC disabled on my computer.
3. Finally I'm having issues in protected areas. I can't use the program in say Program Files. I assume this is due to UAC
It's almost certainly due to UAC. I know it's not much help, but the app works fine for me in Program Files. Again, though, I have UAC disabled. Please keep in mind that F2F was originally developed in 2009 on XP and, due to the massive shell code changes after XP, I'm surprised it works at all under Windows Vista/7/8/10.