I discovered that evilness a long time ago with Win9x. For some reason, there appears to be a hardwired check for $(windir)\FONTS, or perhaps it is just another desktop.ini thing, but slaving a secondary Win9x installation drive, and then deleting the entire \WINDOWS tree, using Explorer.exe - well, it would nuke the fonts from your *current* Win9x installation, rather than simply delete the \FONTS dir from the slaved drive.
The level of brain-deadness of Windows continues to amaze me sometimes.
PS. Did you know that "dotfiles" (.*) weren't counted as files by Explorer.exe in the file stats summary? IOW, right-click on a directory, click "Properties", and the file count wouldn't include the dotfiles. I haven't checked if XP still has that bug or not.