Also there is a base map that you cannot see. Those zeros you see when first connecting your power commander 6 are just a reflection of the changes you made. The power commander is preloaded with a base map that you cannot see. For example if you download a PC6 map from the dynojet website and try to view the fuel trims they will all appear as zeros.
I think you can compare a pcv map to a pc6 map and apply the trims that way. I was looking for a way around it the other day. Im pretty sure that worked. I had to leave for work before i had a chance to check.