THe Basestations hook up on any unused station port. I usually put them on the last ports available, but they can go anywhere. Are you using remote power suppliy or power at each base station? If you use power at each base station, after a power lose you wil have to run reavaluation. I use the remote powersupplies with a UPS to eliminate having to run reavaluation all the time.
Good Luck!!