Well, when you pull up a specific airport, you're not pulling up raw or secondary radar. You're looking at traffic that is either IFR, or receiving some level of radar service, going to and from that specific airport.
Aircraft squawking 1200 aren't discreet to the system at all, and it would be impossible to pull them up from radar data.
Without knowing the full details, I would make an educated guess that it is all non-military, or otherwise unclassified aircraft that have a discreet squawk code assigned to them. If I try and pull up, say, NAS Pensacola, I see no flights in and out, though surely there are flights going on, at least one.
~Nate