Cool_Hand,
Format the floppy and then copy the IO.SYS and COMMAND.COM files from C:\WINDOWS\COMMAND\EBD to the floppy.
They you will be able to boot with the floppy and Flash the Mobo.
Take Care,
Richard
P.S. The way you clear up the clutter on IRQ 11 is to install Win2K/XP. (As long as your Mobo supports APIC.)