Here is the IIGS booting from the Floppy Emu on the smartport with the MicroDrive Turbo also set to be recognized. I set the boot drive to slot 6 to pick up the Floppy Emu. It is GS/OS 6.02 by the way. Here you see the GSOS forced me to rename the HDs on the Floppy Emu since they were already in use on the MicroDrive Turbo CF Card.
IIGS Floppy EMU and MicroDrive Turbo Together Apple IIGS