When the flashing proggy comes up it should ask for the name of the file to be programed. Type in the file name {XXXX.bin} and you should be good to go.
The Shuttle website has a utility called winflash.
It allows you to flash your BIOS without the need of a floppy.
Check out the support on their site and their FAQ has the answer..
Hope this helps.
-2hot
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