First off, who is the main hero of this film? It seems like the story is spread across the core characters of the film that there is no main hero or heroes to me, nobody seems to be the focus. I suppose the closest to the focus is Anakin since a lot of the time he's not doing anything or on-screen, someone is still talking about him, but he's certainly no hero of this picture.
Secondly, we have a war between the Republic and the Separatists, both sides being secretly controlled by Palpatine, and when Anakin and Padme are discussing the 2 sides, Padme asks if he's ever thought that they might be on the wrong side. However, the Separatists are taking over worlds by force left and right, they may not be as corrupt as the government of the Republic but they seem to have just as ignoble motives - how can Padme consider that Nute Gunray and the evil Count Dooku's fellow evils are the superior philosophies to that of the corrupt Republic? So it seems like the only philosophies at play in this movie are the Galactic Republic who we are shown to be corrupt and evil as well, the Confederation of Separatists who are shown to be evil and run by a corrupt organization, the Jedi are the closest thing to the "good guys" but they are not a universal philosophy that someone like Padme or Bail Antilles can follow, they are a religious order.