That software makes programming a pleasure. G4HFQ is a top notch guy too! That will be the only way to copy all the frequencies from one side to the other.
I picked up my programming cables from
http://ttl2usb.com/
If you have a hundred frequencies all input by keypad into the radio, you have WAY more patience than I.
I am not going to be much help on your feedback issue. Good grounds. Power and ground run to the battery and an inline power filter on the line. Antenna coax without loops and run away from the power wires. That works for me.