This is the only thing keeping me from falling completely in love with this system. I too wondered if you could adjust the secondary butterflies to open less or something to allow in less air.
Looking at the logs, it's pretty apparent that the learning value is going too negative (pulling fuel) during cruise. To the point that any change in throttle causes a lean spike. I'm going to experiment more with the learn value and see what can be done. I tried to limit the 'min' learn value, but that caused it to run rich in several areas where the trim value couldn't lean it out any more. I increased the learn rate into the 80's and it would bog more frequently when making small changes. I reduced it back to just a few points over where I began, and it's a little better. I'm going to try and reduce it while cruising close to steady at my most troublesome RPM point, then maximize the min trim value and take some new logs.