If your only consideration is image quality the D100 is the obvious choice.
The CP is smaller and will allow you to somewhat more flexability in that you can shoot both wide angle and macro in the same dive.
With dual strobes your going to have a big rig so the size difference is not as much so I would go with the D100.
As far as ports. The Ikelite port system uses a different port for each lens.
see Ikelite website for a chart that matches lens with ports
http://www.ikelite.com/web_pages/2port_nikon.html
I would recomend the 14mm for wide angel lens(the wider the better especially on crop-factor cameras) but it will not fit in an Ikelite port.(Probably to large diameter)
No the 17-35 uses a different dome port than the 60. Most people recomend a flat port for macro anyway.
60 vs 105 with the 60mm you can take both fish portraits and smaller critters but you have to get so close to get to 1:1 it is almost impossible. With the 105mm you wont be able to take a picture of larger fish but you will have enough distance that 1:1 is actually feasable. You could get ports for both and pick the one depending on what you want to do on that dive.
Ikelite has a cool port for the 105 that allows you to switch between MF and AF so that might be a reason to go witht he 105 over the 60.