EGI is an old program! In its file manager it only presents the floppy drives and the Ramdisk, letters A:, B:, C:, D: and E:.
But it is not a problem of EGI, as the EXDOS always asks at startup for the init file.
I think the necessary EXDOS.INI file is only read from a floppy. Ask Zozo how to execute a startup file(batch file) without a Floppy controller card. I don't know if it is possible.
On the other side, if EGI is well written it must admit other logical units. I'll see it with the emulator...