Mike, a monochrome firewire camera + filter wheel is the way to go, but be sure and get narrowband (dichroic) filters for the best result.
I'm using Astronomik RGB filters, and on Jupiter I record about 60 seconds through each filter at 40fps uncompressed. This gives me about 2400 frames in each colour to play with and the rotation artifacts after 3 minutes are still very small.
I'm using a Dragonfly Express camera from
www.ptgrey.com
regards, Bird