That will make your job harder, you need to compare optimized to optimized. Fortunately the PCV can switch between two maps.
Not on the fly with the AutoModule plugged in, it cannot. The terminals on the side of the case to switch with and the memory that you would use to store the second map are used by the autotune module. So, first I have ride the bike enough with a set of trims in the autotune to develop a good map, which can take a bunch of miles. Then, save that set of trims off on a laptop and start over again with a set of trims for running with HHO. Once those too sets of maps are made, I'd have ride a loop with one map, then ride the same loop with the second map, hoping that all the external conditions are the same.
As soon as I get some funds, I'll make a trek to a dyno and try to get a set of trims put together for each.
So it will be even harder than I thought.
Good luck, but this is just too painful to watch.