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Take a look at the Marshall Protocol site. The are several people there who have thyroid problems as a secondary issue, who report that their thyroid problems are reduced as the main problem gets reduced.

My experience with sarcoid is that any injury I get becomes a sarcoid infection. As the immune system goes to work to repair things, it leaves little clumps of sarcoid scar tissue. So, I tend to get tendonitis or carpal tunnel from any bang to a joint, I've had eyesight lose to a retinopathy, severe pain from sarcoid inflammed muscles, an Irritable Bowel Syndrome diagnosis, depression, and high fever over an extended period, insomnia, skin rashes. All of those are improving. The fevers and skin rash are gone.

From my experience and my impression of the experiences reported on the MP sites, it seems that which auto-immune disease you are diagnosed with depends somewhat on the underlying bug and somewhat on whatever organ(s) the immune system carries these bugs into.

Also take a look at the page that lists sarcoid symptoms. It's rather long, and shares a lot of symptoms with lupus and other auto-immune diseases. An awful lot of the things that I'd assigned to the just-getting-old-faster-than-I-want category are listed there.