The operators could be linked by satellite, meaning they could be anywhere. Drones in Afghanistan are routinely operated from bases in the US.
Yeah, this is not an easy problem. I suspect the drones linked via Satellite are surveillance only -- you will have 1-2 second delays in control. If all you are doing is flying, that is fine.
If you have a stationary target, that is fine. If you are going after live moving objects, you can't target them. I suspect most domestic operations will have to be a bit closer.
The only way you will take these down is to fly one yourself, and target it. Its possible that with a good enough radar tracking system, you might be able to jam the incoming control signal/and or launch a EM pulse strong enough to disrupt and fry it -- but I am sure the military models will be EM shielded. -- However, a large enough pulse will still be picked up by the Antenna, and if on the right frequency may do some damage - but you will need a lot of specifics about the command and control communication, and if its switching frequencies are part of the communication path, it will be hard to target- requiring more power (and faster rise time) in your burst to blanket a spectrum..
The average Joe is not going to be able to do anything about it. I had a special ops Marine tell me he actually caught someone marking the GPS co-ords of his house.(don't know if he was playing with me or not - Seasoned Special Ops guys will do that) They also did it as part of the last census. The plan here may very well be to announce that anyone out of line will have their house targeted - you neighbors will be keen to turn you in so they aren't collateral damage. They may just go with a Serenity "If your target goes to ground, leave no ground to go to" campaign- its hard to predict if that will inspire the required fear in the sheep, but I think that to do so they would have to do it in Kristallnacht fashion. Targeting and attacking the "big hitters" they are afraid of ( like seasoned special ops) in a one night all out attack. Problem with that approach is they immediately draw the battle lines. There is no plausible deniability about who the attack came from or who ordered it. I still suspect its going to come in the form of a biological agent - the drones, if used, will be to "mop up"
Or there is just the possibility that they really just want to use them for crowd control and surveillance. Bottom line, a law isn't going to stop them if they don't want to follow the law.