I would say, just go for it.
Just try and error through it, like you did with 3.1
The Myide-drive-LBA2-manager (Windows/PC-tool) is very handy to transfer stuff.viewtopic.php?f=7&t=1318
Just remember to enter the MyIDE-MENU once and exit/safe to update to the 4.8 format!
4.8.5 has the same function as 3.1 but nicer and with menu's.
After done SETUP, forget this disk.
LOAD will start the BIOS from your harddrive.
4.8.5 is self-containing, no extra disks needed, all tools for setting-up etc is in the bios.
Like MyIDE-MENU equals FDISK.BAS, IMAGE-MENU, RESET-MENU (shift+control+tab)
Use START for images, the list will be empty names, since 3.1 did not support this.
You can fill in the names into the slots, so you see what number is what game.
But it could well be, that you can't enter names......, since there is no density information either.
So you need to redo some copy work with the > key (SIO-to-HD)
I read your progress here later, success.