I'm guessing “CNS” referred to (which I have never heard of) is some sort of special frangible round (one that breaks up into multiple pieces on impact like a dinner plate shattering).
"Central Nervous System"- which is the ONLY impact area in which you''re guaranteed to stop a human target with one shot from a pistol.
CNS targets include the neck, head, and centerline of the torso. The large majority of defense oriented firearms instructors teach their students to aim for direct center mass- the goal here is to score a CNS hit entering through the chest and exiting through the spine, incapacitating the attacker. It doesn't hurt that you're likely to simultanesouly pierce the heart or lungs.
As you said, the most fundamental aspect of a handgun round's effectiveness for a non-CNS hit is the wound channel it creates. Handgun rounds, with the exception of the highest caliber hunting rounds (.454 Casull, .500 S&W, ect) do not create enough energy period to inflict hydrostatic shock damage like rifle rounds.
Again, I place more value on trained shooting and accuracy then on handgun power, and hence place little faith in the "one shot stop" statistics...but that said, as far as I recall 125 grain .357 Magnum jacketed hollow points always top the lists, with .40 S&W JHPs next and .45 a third.
Just for ****s and giggles, I gave it a quick Google and came up with this:
http://www.chuckhawks.com/handgun_power_chart.htm
According to that, the most effective .45 ACP registers a 94% one shot stop effectiveness, while the most effective 9mm is pretty close at 91% (.357 mag shows at 96%).
Like I said, I understand your point and to a large degree I agree with you, hence why when I carried I carried a .357 magnum. But, I'd rather a new gunner learn to shoot accurately and effectively with a 9mm then shoot poorly with a .45 or .40- because I believe that accuracy and good shoot placement with a 9mm will serve one better in a defense situation then poor or even mediocre shooting with a .45.
Here's a good article on the whole topic if anyone's interested:
http://en.wikipedia.org/wiki/Stopping_power
I don't agree with everything there, but it brings up some interesting points.