And re: organization, I just label each clip with a string of keywords usually including the following things:

Character
What the character is doing (actions, gestures, poses)
Directionality (up, down, left to right, towards/away from camera)
Shot type (closeup, wide shot)
Shot angle
Setting (if visible)
Day vs. night
Interior vs. exterior
Light coloration (for very stylized sources)
Any geometric shapes, objects, etc. that stick out in the shot

And then I can search for those keywords later to find a particular shot or type of shot.