Use the command line client then you can keep all the software separate for each gpu. What you need to work out first is which gpu is gpu0 and which is gpu1Use CUDAZ for that its the only thing thats accurate.
Either:
a: the GPU3 client robbing the GPU2 client (if you are running both GPU3 and GPU2)
Or
b: the GPU3 client running slower on the older hardware (if both running GPU3)