Not only can you miss some great stuff in the queues (like Dueling Dragons), you can actually miss the entire set-up for the the ride, which in a case like "Spiderman" can result in you not understanding what the heck is going on. If you haven't seen the videos that are playing in the regular lines, you won't know the storyline - even having seen the videos, it can be difficult to figure out exactly what's going on in there as quickly as the ride moves along.
I also think Dr. Doom's Fearfall has a great (albeit entirely unnecessary queue - those Doombots are awesome!).
This is, in my opinion, one of the greatest shortcomings of the EXPRESS system. It wasn't until maybe the seventh time I rode Dueling Dragons that I realized there was a video, and I only noticed that because I was really paying attention (the video is easily a quarter of a mile away from the actual ride, which would be great if you got into a two hour line...actually no, that would be pretty hideous.
Some queues are pretty mundane. Missing the videos in Jaws is no biggie; same with Jurassic Park, Hulk, BTTF, etc. Now if I could just find a way to bypass the preshow of Earthquake, I'd be a happy panda (and if anyone has a suggestion on that one, I'm all ears. The new preshow is better, but it still isn't my cup of tea).