Hook up questison

Does this mean I use the tuner portion of the NAK only then plug everything else into the NAD

As Modi said, yes, BUT only if you
A. Need a tuner and
B. If the pre/amp section of the NAD sounds better than the NAK. I'd try them both w the same source and see which one you like better. If it's the NAD then you can do as MOFI said to get FM. If you like the NAK better, then there's no need.

If most/all music is on the ipod then I would compare the NAK vs NAD when driven by the ipod and choose which sounds best and use that one. How are you planning on getting a signal from the ipod?