Controller frequency will depend greatly on your computer, probably best at 2KHz but if you have problems withthe SS running out of buffer then go lower, if your computer has good communications you may find 4KHz will work fine for you, it does on all my machines but I tend to just run them at 2KHz anyway.
As for the max step Frequ, set that to the setting just above what you require, eg if you have 20,000 steps per unit and rapid at 200IPM then that would be 20,000 x 200 = 4,000,000 per minute / 60 = 66.666 KHz so choose 128KHz as that is the next above. For any axis that is not being used choose the lowest.
Hood