I'm so sorry that you are not feeling well! I can sympathize with you that the long process can be so frustrating. But don't give up!

I wonder if you could try switching to a different medication, like Armour or Nature-throid, or something like that? As far as worrying about making your doctor mad, I can understand not wanting to burn the bridge, especially if you really like your doctor for other issues. But, I think maybe you could just say something like, I really feel like I need to get to the bottom of what is causing this problem, and I really would like to pursue seeing a specialist about this, and then ask for the referral. A good doctor who really cares about your health should be willing to refer you if you ask for that! If they get offended, well, it doesn't seem like they would have your best interests at heart. I have just recently had to find a new specialist myself, and I found a couple of places that do not require a referral. So, it might be worth checking to see if you have any specialists who do not require a referral, if you are wanting to keep it off your doc's radar.

Hope you feel better soon!!