I am actually going to post an update right after I answer. As far as oxygenation goes, I don't mean oxygen breathed in, I am meaning oxygen necessary for mitochondrial function and cell health.
I attribute the malfunctioning breathing to that cause in the first place, which I'm sure contributes to the overall problems, but think it wouldn't be the case with out the autonomic dysfunction in the first place.
I have some kind of bizarre thing thats been happening for 3 years now where as I'm dozing off I wake up with either a harsh myoclonic jerk in a limb or my whole body and other times its with heart racing. I don't think I have obstructive sleep apnea, but I do have a problem where I wake up with a quick gasp type of involuntary in breath and then I fall back asleep or it keeps me up. My doctor said its because of my nervous system and its like a "reboot". Any way these "happenings" used to be scary, and now they are just annoying.

I forgot the name for it, but the ENT said my nose is inflamed leaving me small areas to breath through and I do notice in the early 3 am morning hours it becomes very difficult to breath so I get a poor nights sleep due to having to remember to keep my mouth open to breath. I think you said you take an allergy med, so maybe you have this problem as well?