Should the KCERS be the system? Or a site? And to actually start scanning what, do I press 1, then 6, and it starts scanning that site, and the do I set the certain talk groups in that site I want after setting the sites?Use FreeScan. You don't want to program in every site into a single bank.
Use #1 quick key for Site 1 (SPD) of KCERS. Use #6 quick key for Site #6 (ValleyCom) and you'll receive about 95% of the system. For my scanning, I have a 3rd quick key for my "scan only" TGIDs. These are the primary TGIDs that I want to hear no matter what. The other two banks are used for "id search" so I get everything on the system from those specific sites.
Start with the ValleyCom site and get it up and running first. Then worry about the next steps.