Good post but have to disagree on a few things. What I have come to learn based on my own experience and COUNTLESS testing, research and experimentation on my own body, the adrenals act as a battery backup for the body. It IS the back up reserve battery actually, it is the fight-or-flight and that takes over when the body's normal functions are lacking. It's not that the adrenals are "weak" so to speak, that's the problem. That's only partly true and yes, higher on the "cause" pyramid but still not at the top.

The leaky gut, for reasons still unknown exactly to me, are the cause of weak adrenals. It is a vicious cycle and might have to do with inflammation but it's not entirely inflammation because otherwise antiinflammatory drugs would fix/mask the symptoms entirely. When my leaky gut gets worse (if i take things that burn my gut, like spicy food, undecylenic acid, caprylic acid, alcohol, etc.) my stomach feels very fluttery like i got punched in the gut/on a rollercoaster drop and my adrenals kick in full force.

The adrenals are responsible for controlling inflammatory responses in the body.  When there is damage though the inflammation is not going to be suppressed completely by either the adrenals nor anti-inflammatories.  For example, if you were to smash your hand with a sledge hammer no anti-inflammatory is going to remove all the inflammation.  And the adrenals are not going to completely suppress the inflammatory response because we are highly dependent on the inflammatory response for both healing and infection control.  So it would be counterproductive for the body to completely suppress inflammation when it is creating the inflammation again to help with healing and infection control.  If the adrenals are not working properly though, both inflammation and immune reactions can get out of control.  Keep in mind that the corticosteroids are not just for inflammation, they also regulate immune reactions.  Consider autoimmune disorders.  These disorders are caused in large part from the lack of adrenal corticosteroids leading to the overproduction of low affinity (nonspecific) antibodies that tag the healthy tissues for destruction by the immune system that is otherwise functioning as it is designed to do.

My adrenals have the capacity to perform at good levels as shown by cortisol testing

I don't believe in hormone testing of any kind, including cortisol.  The tests are just way too inaccurate.

and all other testing but for some unknown reason, they are tied to the gut directly. It is said that the gut has its own neurological system and taking into consideration that the body is one and the neuroendocrine system has some fascinating reactions.

I don't know if I would agree with "its own neurological system" since the rest of the immune system still interacts with the gut.  For example, the same vagus nerve that can affect the heart, stomach, liver, and pancreas also affects intestinal peristalsis.  So the nervous system to the gut is not independent from the rest of the nervous system.

The constipation can be due to lack of flora but there are other causes for it. In my case it is not necessarily lack of flora but leaky gut. The inflammation or weaken lining has some mechanism that stops peristalsis in me entirely, when i eat something i am allergic/reactive to. Very weird. It goes away and i have normal relieving BMs once at 12pm on the dot everyday should it not be irritated/reactive. Probiotics, kefir, all constipate me. They stop peristalsis immediately and testing has shown lack of flora isnt the problem for me.

Yes, there can be other less common reasons such as the use of iron supplements, overuse of stimulant laxatives such as senna or cascara sagrada, low thyroid, excess progesterone, lack of bile,  nerve damage, etc.  Dairy products can also constipate some people, and dairy is often associated with probiotic sources.

Also I would like to add that probiotics are not going to do much without prebiotics to feed ALL the flora, not just the few strains being supplemented.

The theory I am testing, comes from a paper written that explained that some people tend to have problems with probiotics and flora when their SIgA is low. The body's immune system does not recognize ... or fails to accept probiotics and colonize normally. given the fact that probiotics were tolerated no problem for me until my fecal IgA started to drop significantly and that SIgA deficiency = leaky gut = adrenal symptoms, all of it is tied in as one system.

Interesting hypothesis.  Although another possibility is that antibodies are being formed to the probiotics in a similar fashion to to the low affinity antibodies of autoimmunity.

Id like to think that a healthy gut is a healthy adrenal system.

But again you need healthy adrenals to control the inflammatory responses in the gut.

I would still give good quality probiotics a shot and take probiotics that raise your IgA, as well as try colostrum (lactose/casein filtered out) and/or immunoglobulins, glutamine and saccharomyces boulardii if tolerated. All raise IgA and gut health. Do this with antifungal that you are on.