Well, you can either use the separate 5V supply that was there or connect it to the one open terminal on the CC-M that has 5V on it. I can't honestly say if the CC-M and the IR tether will be too much load for the 5V supply, I'm guessing it'll probably be OK. I know many are running in that configuration.
The instructions obviously didn't anticipate the separate power supply, that's all I can think.
There are so many minor variations in the wiring of these things that sometimes you have to do a "seat of the pants" change in the wiring.