Where are you getting your information? It isn't the alkalinity that kills the pathogens in the body. It's the raised oxygen levels the alkalinity creates in the body.
Pub Med proved that outside the body pathogens thrive in and alkaline environment. They failed to realize that in the human body the oxygen levels rise.
"Oxygen “burns” or oxidizes these harmful critters. In addition, oxygen boosts the body’s metabolism increasing its energy reserves that “fuel” and mobilize the immune system to go out and fight whatever is left after the initial fray is finished. Oxygen also helps heal whatever tissue damage was done by the pathogens during their reign of terror. For these reasons, boosting oxygen levels in the body can be one of the most powerful weapons for overcoming polysystemic candidiasis and returning the body to a natural state of health and balance. Ozone, fortified oxygen, can get the job done many times faster. Of course there are many other things that can and should be done as a part of a complete program, but it cannot be overstated the importance of oxygen levels in the tissue and blood."