Which specific autoimmune diseases cause severe chemical dysfunction with neurotransmitters and significant electrical dysfunction with the nerves ?

There are some : we can see thid across the spectrum. I would suggest you ask your physician to have you see in neurologist so that they can clarify which syndromes may be causing such an issue. Neurologic dysfunction, with chemical dysfunction, and electrical dysfunction of the nerves can be associated with A variety of inflammatory processes. Have a neurologist could help clarify this for you