DXO decided to dumb down their lens+body measurements and to report the results in some metric that they keep secret. From other discussions here, I can guess that it is heavily weighed towards higher MTF's, i.e., it measures mainly what we call "contrast". Then 36 or 22 mp does not matter much.
The most important factor in their BS Score is transmission, which is why the cheap 50/1.8 lenses from both Canon and Nikon score several points higher than any of these 500/4 lenses. It's only when you have lenses of identical max aperture that the other stuff has any influence. BTW, while the 500/4s score 25, the Canon 50/1.8 on a 5DIII gets 28, and the Nikon 50/1.8 on a D800 gets a 31, and main measurement difference between the 50/1.8s is that the Nikon is 1 P-Mpix sharper (put it on the D3X, it's sharpness and Score tie the Canon). So, the Nikon 50/1.8 is 1 P-Mpix sharper and gets a Score 3 points higher, the Canon 500/4 is 3 P-Mpix sharper, but the Scores are equal.
I begin to wonder if the 'secret metric' you mention is sponsorship...