I have a similar question, so I'll just throw it here. I was trying to play with a friend for the first time last night, and the randomization was incredibly poor. Like, every game had a Smithy, a Village, a Witch, Gardens etc. except there might be like one random card from some later set. The fact that this random card came from a variety of sets, and the fact that if I manually chose which Kingdom cards to include, we could have cards from any set, leads me to believe this is not a problem with my companion marking cards as familiar or not, but just a serious problem with randomization. I thought I'd bring this up, in case you were looking for issues to address.