I just create shortcuts for each card I use w/ the -d flag to disable the "other" cards not specific to that shortcut. I run 4 instances 3 for vid cards and 1 for asics on the same machine. So yes the flexibility is there to do what you are asking without having to do it all in 1 batch file.
and what when you have freeze on your GPUs
The others continue to run as long as it isn't the machine that locked. Unfortunately I am not running cgwatcher so it's a manual process, but have remote access to my network from my phone if I need to restart things as I keep an eye on things throughout the day.
