Hi,
Good luck with your old A1000's SCSI drive! This should also work fine from the Windows version of UAE. I recently did this the other way round, copying a load of Amiga stuff to an FFS-formatted drive so I could do a bulk transfer of files from my emulated UAE environment to my A3000.
However, a word of caution: if your A1000's drive works, great, but the first step I'd recommend is to copy the entire drive's contents to one of your PC drives, BEFORE you go off looking at old files, etc., just in case the drive dies.
- Ali