You guys didn't mind the Home Alone ending?
This. While I agree that there were a lot of edits that could've been made, Skyfall was shaping up to be right up there with one of my favorites up until they got to Skyfall. Once I started getting that Home Alone vibe and had that christmasy theme song get stuck in my head in the theater, I was pulled out of the film.
I also think the old groundskeeper could have been completely removed. I realize the actor is very well-known, and the role was written for Connery, but once Connery passed it should have been removed. Didn't really add much and the mentor role could've been filled by M, which would've both tied in to her actions throughout the film as a leader and a mentor, and gave the ending even more punch.
Those two MINOR changes would've made for a near perfect Bond flick in my book.
As far as favorite films? Jeez. That's hard to do. My favorite is probably Dalton's Licence to Kill, with Casino Royale being up there along with From Russia With Love.
I also have a soft spot for Tomorrow Never Dies. As cheesy and badly done as it ended up being, it was really in keeping with the times it was made (mass media/internet blowup), and made for a really interesting play on manipulating the media. The execution was severely lacking, though.