I don't see the issue, to be honest. Winning 2-0 rather than 2-1 is clearly better, and thus can result in a little advantage.
indeed if your opponent draws 7 creatures in the initial hand in pvp2 because is unlucky makes u a better player that totally deservers the advantage of having another deck against the opponent of the next round
if is better winning 2-0 than 2-1 why for choosing the 3-4 place in every weekly tournament there is a best of 3 battle instead of see who lost less matchs?
i think that some part of the rules in tournaments should be all consistent, is the first time i see a tournament where winning 2-0 is better than a 2-1, and like i said, winning 2-1 or 2-0 is the same.
btw, i will join the tournament etc, i am writing here instead of sending a pm to organizer because for me is a huge flaw and i wanna read the opinion of the other guys that will join.