Hi and thanks for reporting this scenario. If you have selected a single GPU for the benchmarking, Awesome Miner tries to be smart and generates a configuration based on a single GPU. However, you don't want that in your case.

I will change this behavior in the next release. I think a workaround for the moment could be to set the GPU for benchmarking to "All Combined". Then Awesome Miner shouldn't change the GPU settings in your configuration.