 Your misunderstanding of the GHE is what leads you to see a conflict where there is none. Empirical data of the GHE will clearly show how the GHE works. During the day, the upwelling IR rises at a much faster rate than the downwelling IR. The net IR decreases during the day and the GHE is less effective (but still there). If the Pacific dumps a lot of energy into the lower atmosphere, raises the temperature, the GHE will still take place but the upwelling will be at a higher rate and result in cooling. http://www.esrl.noaa.gov/gmd/webdata/tmp/surfrad_00a0