My point was that our human body doesn't work by rhetorical reasoning or intuition. There are often things we discover about our immune system that are counter

My point was that our human body doesn't work by rhetorical reasoning or intuition. There are often things we discover about our immune system that are counter intuitive - for e.g. Using specially developed & formulated vaccines to teach the body to suppress immune response towards antigens (via Treg cells), rather than to neutralize them which is what most vaccines aim to do. Specifically I was objecting to "Given X, we wouldn't expect Y to happen" aspect of your argument. Its never so simple with the human body! It works in many other domains, and so as a former programmer myself I have to catch myself trying to apply such reasoning to biological systems which can't be modeled like that.