That definitely should not be happening if you have Auto Arrange disabled. This is something that has always bothered me...seems I've seen a third-party application that will allow one to save the precise desktop arrangement but for the life of me I can't recall the name. This is a particularly common problem with Win95 but much less so for Win98 (in my experience). Nonetheless, it aggravates the hell out of me to have to redo my desktop following any time I boot into Safe Mode.
Your question has finally encouraged me to search the MS Knowledgebase for an answer. According to
this article, desktop settings and MRU entries are stored in the two following registry keys:
HKEY_CURRENT_USER\Software\Microsoft\Windows\CurrentVersion\Explorer\Streams
HKEY_CURRENT_USER\Software\Microsoft\Windows\CurrentVersion\Explorer\StreamMRU
I expect you could export these two keys as a backup (merge them back together in notepad) and double click the REG file to restore the settings. But then again, it would probably require that you reboot for the change to take effect
😛 I'm gonna try this myself, by importing the REG file right before I boot out of Safe Mode and see if the correct desktop is present when I boot again normally.
As to why your settings are being wiped every time you reboot, check to be sure there isn't a key NoSaveSettings in HKEY_CURRENT_USER\Software\Microsoft\Windows\CurrentVersion\Policies\Explorer. If there is, be sure it is set to 0 or delete it altogether.
Best regards,
Floyd