Forgive me for resurrecting this thread but I wanted to add to it. In my experience, the Trust apple has performed very well against CAR. Not only is it resistant, but it grew many times more than any other apple tree of it's size/age over the last 2 years. It fits its name very well. You can trust it! ;) I will definitely be planting more of these because I also have a CAR issue in my area (Eastern Ontario, Canada, Zone 5b). I have not found the source of the infection yet but I have so many cedars on my property and nearby that it would be practically impossible to find it anyway.
Also, of my two "rando" apple trees that I adopted, so far one has been resistant and one has been mildly affected. They are not producing fruits yet so I don't know if the disease would affect the fruit or not but I would imagine it would.
The good news is, all of my other trees (hazel, apple, pear, cherry, plum, wild berries) don't seem to be affected by the CAR. I don't have any junipers either so I don't have to worry about considering those in the mix. On that note, in case anyone didn't know, juniper trees can carry and pass along CAR like cedars do, so take that into consideration if you have any. But on a side note, apple trees do not apparently infect each other, so there's that to work with. And you can always use a healthy root stock to graft other, more resistant trees like others have mentioned.
Every orchardist I've ever talked to says it's just part of the game and you have to adapt, like anything else. So good luck in all your disease management strategies, guys! Share your findings! :)