what settings did you use ? ISO, WB, aperture, shutter ? Was the video mostly with the 24mm lens ?
Its mostly shot with 24mm (three dives on wreck; two with 24mm). Pink Anemonefish (1:05), snapper (1:40), some jacks (2:43), grouper (3:03), and closeup of garden eels (3:42) are shot with 50mm. Its all manually whitebalanced, with slight corrections in post.
Im sure below is covered in many different forums/threads, but here are some observations how recording video on 5d2 comapres to camcorders. With 5D2 you currently have two modes that you can shoot video in: fully automatic mode where camera controls everything (you can under/over expose, where camera likely uses ISO to compensate) and fully manual mode (M) where you control everything (aperture/shutter/ISO) - with a twist that you can set ISO to auto. I tend to prefer fully automatic in deeper/darker (==less light) waters or when just cruising around, and fully manual in shallower (==more light) waters. In automatic mode camera seems to prefer faster shutter speed over lower aperture (e.g. you end up mostly shooting at lenses maximum aperture, assuming no lights) - which is anyways what you would end up using in manual mode when it gets dark - hence in part choice of using fully automatic in lower light conditions. For shots here with camera on manual I recall using mostly f/8 through f/11 at shutter speeds of 1/125 through 1/250 giving me ISO around 400-1600 - which ought to provide sharp image with [very] acceptable noise levels.
With 5D2 part of the challenge is focusing (and same applies with variations to other current video recording DSLRs as the lenses dont have focusing sensors and cameras cant use the dedicated AF circuitry while the mirror is up to allow main sensor to record the video). There you have few choices - to manually focus, or use one of the three "autofocus" modes. With my prime lenses you have to choose before going UW whether to use manual or AF mode (switch on lens, and setting to AF disables manual focus ring and switch cant be accessed when camera is in housing). I have opted for automatic (or camera assisted as I like to call it) focusing. With camera assisted focusing you have three focusing modes that you can choose from. All share the caveat(?) that unlike real camcorders, they will not follow focus while you shoot, but are fixed to what ever focusing distance and DOF you had when you began recording (you can refocus while shooting, but thats pretty useless and equals stop recording, refocusing and restarting). The "AF" modes with 5d2 are 'quick' and two 'live modes'. In quick mode camera drops the mirror and uses uses the dedicated AF sensors to focus - as the name implyes - this is quick. Live Modes use the video signal to focus, and it's painfully slow at times. For reasons unknow to me - I seem to get way more accurate results with Live modes and have ended up using them (cant recall whats the exact difference between two live modes).
Its too bad that with these two primes I use I cannot put the lens to AF, use camera to focus, and then manually override it while filming using manual focus ring. This would work perfectly with e.g. Canon 24-70mm lens - but it wont fit into my housings port system (Ikelite).