I understand your concern, The site is in a toss up about how it's going to deal with Anime. The episodes are consecutively numbered, the Sagas as we call them just give them a natural break in the story. There should be a single season format as well as it being broken down by Saga to keep everyone happy until the site develops their API to account for this.

FYI: We're (slowly) fixing anime series and building a list of shows that need to be merge. Hopefully, Travis will be able to create a bot-thingy to merge seasons and/or move them to a different entry. And, once we get them how we want them, we'll be able to create as much alternative episode groups as we want for the multiples sagas, seasons, DVD releases, international broadcast and whatnot.

Thanks for the update!