Taken from that list, here are some fan-vids for little fandoms I like a lot:
Let It Be: Mad Men set to The Beatles. It's about Peggy and Don: their various relationships vs their enduring friendship, over four seasons. I think this is a deep and ambiguous vid. (ETA I just watched this again and it makes emotion well up inside of me. It's nice to see the depiction of a loving platonic relationship between a man and a woman.)
Cat on a Hot Tin Roof: Indiana Jones to the Brian Setzer Orchestra. Harrison Ford and Rockabilly are two of my favourite things.
Baby's First Christmas: Misfits to Connie Francis. Shame it uses the Christmas episode which I think was the least interesting of last season.
As Above So Below: Pan's Labyrinth to Enya and Gustavo Santaolalla. The music is quite subdued but the visuals are very strong.
Knockin' on Heaven's Door: Point Break. Ah, Keanu and Swayze at their most lovely, directed by Kathryn Bigelow. Nice.
LA Woman: Pulp Fiction to The Doors. What a brilliant film.