See, folks, this game has this property called 'balance', meaning that there is no all-around best ship.
Now, suppose you were to split the ships into two factions, then you might be able to have one ship and all of its counters on the same side, so that it'd dominate. Then it'd be the best. But the game doesn't ship that way, because the only two factions shipped - old alliance and old hierarchy - are reasonably balanced to each other (though imperfectly).