I think there is still an issue of certain nations being more or less hard coded to turn Protestant, in my game England and Bohemia pretty much flipped as soon as the reformation started and got the two other centers, I also see Sweden do this rather commonly
I find it strange that this is still the case and that we couldn't come up with something more dynamic, also no nation seems to be coded to become Reformed which is just inconsistant
But with the way this works you will get the start in a random place but end up with the next 2 in either England, Bohemia or Sweden, I would be rather shocked if it didn't always happen this way without player intervention, While I disliked the old model, I think this one needs some more work