Custom tunes+ CAI = Lean??? Help

[AZFXFOUR]

So I got my Gryphon last week and finally got around to putting on my CAI so I could run my custom tunes. After going for a test drive I checked my DTCs it was still showing a lean condition. My truck is an 04. I thought the whole reason for getting the custom tunes was to fix this lean condition when running my CAI?? I drove the truck around for about ten minutes and this lean DTC showed up about 4 times. On another note im not sure about the shift strategy that Bill set me up with, I really liked the trans only edge setting that I had before. Now it seems that my if I get on my truck hard it falls on its face after every shift.