H2H is the better format IMO. It's more realistic to go up against other lineups. Luck is a bigger factor due to weekly match ups but that resembles real baseball. The format keeps more teams in the hunt and allows bad teams to play a spoiler later in the season.
It does suck when you lose but put up numbers that would beat everyone else in the league except your opponent. HOwever, it does average out and if you have a good team overall, put up the numbers each week, you will be successful.
"Think of how stupid the average person is, and realize half of them are stupider than that." ~George Carlin