Not sure if you ever figured this out, but when I connected my Innovate LC1 controller to the unused rear O2 plug so I could log AFR, I had to go into the LM Programmer and change the settings for the second analog output that I was running up to that plug. Sounds like you may need to do the same. If you have one source that you know is reading you the correct numbers, when you open up LM Programmer just ensure that the other analog setting is matching that and they should line up. That at least solved it for me... GL!