Vaarsuvius represents the player who is bored with the sidequest in an RPG. Think about it. All V has been doing since they have been on the boat has to research ways to get the party back together to continue with the main plot. V has shown that he wants combats over as quickly as possible. When V disintegrated Kubota, she asked if they can "PLEASE resume saving the world". V is obviously the player bored with the sidequest. He will even kill the (secondary) villain to finish the sidequest. She just wants to get back to the main plot.
Although I don't agree with V on this one, are there any opinions about this theory?