I would like to offer a counter opinion concerning your statement that, ” Many pros prefer not to use the built in camera system infrared remote . . .”
Until Pocket Wizard (and Phottix) manage to get the bugs out of their TTL enabled wireless triggers; Nikon’s CLS system will still be the best way to remotely control multiple speedlights in TTL mode.
I for one have never had any problems using SB-910’s and SB-700’s with the Photoflex Small LiteDome Deluxe Kit.
Using either a speedlight or an SU-800 will give much better reliability than using the cameras built in commander mode . . . however I have not had issues using the Small LiteDome and the built in flash on a D200.
Just make sure that the SB’s sensor window is either looking directly towards the commander or towards a white wall or reflective surface. Mount the SB onto the rail facing backwards and swivel the head around 180 degrees if it will give you better reception.