My question: I assume adding a new timer would go to the hopper you're looking at ?
I.E. I have Hopper A in the Bedroom, Hopper B in the Living Room, I'm in the bedroom, but looking at the content on Hopper B, and schedule a new timer from the guide.
Which hopper does the timer go to, and if there is a conflict, can it move to the 2nd hopper?
You can set the timer from the Hopper or the Joeys paired to that Hopper. If you want to record to another Hopper you can pair the Joey to that Hopper and setup the timer.
All's the intergration does at this point is allow you to view recording from both Hoppers on any Joey (or Hopper)