Most 9mm's aren't capable of 40 caliber energy levels, which IS a downside to the 9mm. To ignore that is to ignore physics.
Ballistic gel is only a standard medium and should not be confused with a representation of human tissue (instead of the benchmark media that it actually is). I have also never read a reputable comparison of pistol calibers in a statistical fashion as you cite, so please include your sources.
When it comes down to it, shot placement is king when defending yourself with a pistol. With that being said, how can you claim that a bigger sized bullet with more energy is going to cause the same damage as a smaller bullet with less energy? That doesn't add up. I do agree that the 9mm does advantages, but it isn't the ultimate cartridge that you label it to be.
I am amused that you choose to lecture me on physics. Please feel free to continue to poorly comprehend what I wrote and believe what you choose to believe.