My overall fave game is still probably the 1st. It did so much very well. The Platforming, the way Disney worlds were used, etc,. Plus the story, while not my fave of the games, was handled pretty nicely...other than the series convention of putting almost everything big at the near to end/end game. My fave story of the series though belongs to CoM. It was just...so strongly done. The introduction of Organization XIII, how tey were handled in the story, the build-up of the situation of Namine...
CoM? Okay I can see that being someone's favorite, storywise. Gameplay was kind of annoying but I loved playing as Riku and being able to use the Dark side was so different. I agree the story is great. And KH1 is my favorite. Gameplay, story, controls, build up...so worth it.