The EOM 3d housing is just a modified GoPro 3D housing with a glued on plastic flat port as a focus fix, not pretty but does the job lol. This is still the only the GoPro 3d flat port housing that gives wide angle 16:9 video modes vignette free.
It has the negatives of plastic which does degrade over time and can scratch up fairly easily. Its also a pain to try and clean the inside of the lens through the 2 tiny lens holes inside the housing. The sync cable just attaches to the 2 GoPro's via the expansion port .
Here is a pic of the setup I used for this video. EOM 3d housing, SRP tray and 2x Sola 500 lights with locline arms.
The free GoPro cineform software is very good and I don't think there is anything else around that can work so well with 3D files.
In this you create the 3D file from the 2 separate video files recorded by each camera, do all the stereoscopic convergence settings and then you can export out in any possible 3D viewing format. Its a great bit of software and if this wasn't provided for free by GoPro the setup would be pretty much useless. This is one of the main reasons they would have purchased cineform as they were the leaders in 3D video editing software.
This takes more work then editing a 2d video with a bit of a steep learning curve but once you've done it a couple of times its pretty easy. After doing the 3D settings in cineform I then import the 3D AVI file into adobe premier and finish the edit there. Exporting the 3d video is the same as any other 2d video through premiere, all you need to do is set the cineform 3d display type to the format you want your final file in and its done.
The thing with lights underwater is that even the most expensive setup will only give you improved colour to about 1.5m from the light source. A good filter can give more colour to everything but this does get effected by depth unlike lights which do the same at any depth. Both methods can do a pretty good job in some conditions but they both have their limitations, filters are much cheaper and easier to use then video lights.
With the 3D setup you don't have an lcd screen on the GoPro so this also makes it much harder to aim your lights for best fill, I found using an lcd and lights is much easier. As the cameras in the GoPro 3d setup are pretty close together this makes them work best with nearer objects, this is great for underwater as you rarely see anything further then 15-20m from the camera anyway.