You have no idea what's in an OS3.9 kickstart do you - it is all just relatively small updates to what's in an OS3.1 kickstart, they are essentially the same.
This brings us back to the start! Replace the old stuff with the new stuff and you eliminate the reboot patch. Perfect sense.
Now the idea to replace the ROM with a small flash and add some stuff that gets everything going in one quick action is an interesting proposition.
This gets my attention real quick. With new FPGA's we may have some very fast 68k machines soon and this would make everything fly.
Chris