I've been away for too many years to do much good but I have had several Zeus boards that I vaguely remember playing with. Init040 has several different commands within it with various parameters. In order for the processor to play nice with other programs and boards like gigamem and Emplant/Fusion you need to manually set everything up in your startup-sequence. I don't remember much of the details, but to point you in the right direction, get a holds of the setup instructions for Emplant. Init040 that came with the Zeus is dozer (just good enough) programming. You need to modify or replace it. In order for Zeus to work optimally it needs the jumpers set to 0 auto-config in order to configure contiguous memory, and you will need to do some math for the beginning and ending memory space.
Look up Set040, Addmem and Romtagmem; and good luck.