Long story short, I got up the enthusiasm to organise my files, installs, links, and everything, so I am now using ASuite as my application manager. I think I used 7zip to extract the PortableApps.com Suite to /PortableApps/System/PortableApps.com/ where I link solely to the backup utility.
When only using the backup utility, are there many redundant files in the App files, or can I only delete the PortableAppsPlatform.exe? I know its not a lot of physical space being freed but it is "cleaner" to me, which is what I want.
I expect I don't need /App/DefaultData/FolderIcons/ as I don't use them.