My favorite is The Ashes of Eden or as I like to think of it: Star Trek VII: The Ashes of Eden. What a wonderful end this would have been to Kirk's adventures. It was certainly a more respectful and exciting end to this character than Generations provided. I also love the comic book adaptation. Just seeing this story visualized makes the pulse pound at what could have been if Paramount had agreed to produce this flick.
This was the first one I listened to Shatner "read" the story with music and sound effects. Closest thing to an original series movie I've had in many moons. Terrific story.