Yea I still use my MX paste as I bought a huge tube of it because for me its been great in my LC loops in keeping temps down and even made my laptop run at lower temps.
Wait what are we talking about?
Ohh I see, well when the second card is disabled it pretty much shuts it off completely because of the way 0 core works if I recall (Generally when 0 core is on with multiple cards the secondary cards shut off anyways). The CFX through PCIE I could not imagine being the cause of the heat mostly just because its not really that much different from having the cable like before except it just sends everything through the bus. Personally when I tested my PowerColor Reference models in up to 2 way CFX on the stock coolers the temps were like this:
Single Card: (60% fan speed after driver revision)
Average between the 3: 81c
Dual Cards: (60% fan speed after driver revision)
Average for top card: 85c (of the 3)
Average for bottom card: 83c (of the three)
All open air mind you with them in the nearest slots together running through heaven.
I tried every card on the top and bottom in stressing originally because I like to make sure my cards are fine before I put the blocks on them and start running them in a liquid loop. I did not really notice the temps jump because the second card was there but I normally did see the tops a bit higher mostly from the restricted airflow. This is just my experience and its also on an old driver revision (Like 14.1 maybe cannot remember) but I just remembered the temps because I was posting them on different forums for people to see originally when I was talking about them.
Not totally sure honestly as something could be causing that but I did not really notice much with my cards. I cannot test now because with my liquid loop letting the cards all run obviously raises the temps now