I like the Desmond stuff. Each game has its own storyline but then there's also a larger story being told that spans the whole series. It's not really something you see in games much.
Well it seems like the writers agree with you if the ending of AC3 is anything to go by...
They were good until AC3 fucked it all up.
As short as it was, I thought the atmosphere in the Brazil level of Assassin's Creed III was fantastic.
Me too; after liking them a lot in AC1 and 2, I was beginning to hate the Desmond sections until the Brazil one came along. It was a fun surprise to realize that I could "blend" into crowds just like Ezio could, only without an HUD to help me out, and I started hoping that the end sequence of that game would involve this somehow. Unfortunately, that didn't happen.