I question the same issue: Is the immune dysfunction a cause of the pathogens ability to propagate in the body? Or is the pathogen responsible for the immune dysfunction?
My best guess is that some of us may be immuno-compromised from vaccines or some other factor such as genetics or any number of other possibilities. In the case of Crohn's I believe the immune dysfunction is not caused by the actual bacteria. For the simple reason that most of the bacteria implicated in the disease is fairly common and most everyone would have been exposed to it at one time or another. Yet only a few of us actually ever develop the disease.
I am fairly certain of that part of it. However if I find evidence to the contrary, I will use that accordingly.
In the case of Lyme disease and MS, and I am assuming that different strains of Borrelia are the cause, the pathogen is very stealthy. It is not seen by the immune system and it has the known effect of suppressing the immune system in some, but not all cases. In cases where it does not affect the immune system people get along quite well, not even knowing they are infected. This may be largely determined by what form the bacteria is in at the time and the pathogens seem to affect women more than men for hormonal reasons.
Since these pathogens are not ones that most people are routinely exposed to, I would guess that the pathogen themselves may be the cause of the immune dysfunction. So it would be quite possible that by eliminating the pathogen, you eliminate the immune dysfunction.
My best shot at it. Of course, none of this is proven.
Here is a response I got from a person involved with the site in the prior post. I do not agree that the Marshall Protocol is the only effective treatment, but it certainly is one of them.
I am glad that someone is actually putting this knowledge to some practical use.
"Hi D Bergy,
I�m glad you find this site to be informative and thanks for your nice comments about my work!
The MP is the only treatment that effectively kills L-form bacteria, so the only way people with MS could target Borrelia L-forms would be through the MP. However since the MP kills different species of L-form bacteria simultaneously, it would be impossible to do a study in which only Borrelia L-forms were being killed.
Unfortunately high dose and IV antibiotics do not effectively kill L-form bacteria, because as described in this article, at such high doses, they negatively affect the immune system:
�Getting it Right: How to correctly target L-form bacteria�
The good news is that there are an increasing number of MS patients on the MP who appear to be recovering in the same fashion as people with other Th1 diseases. They are definitely experiencing immunopathology - a clear indication that L-form bacteria are being targeted.