|Just copy it to a floppy disk.|
Then boot up the 98 pc. After the 'missing win.com' error message put the floppy with win.cnf in the floppy drive and at the dos prompt type
copy a:\win.cnf c:\windows\win.com and enter. That will rename the file as it's copied.
Then remove the floppy disk and reboot. If no other files are missing it should boot up to the 98 desktop.
You're not really green until you're soylent green.