Just two cents:
I think there is a lot of misinformation out there concerning Armour. It seems to me that because both the synthetics and Armour are used for thryroid malady...docs just prescribe them the SAME exact way. This is a big mistake and the poor patient suffers for it.
Now, in your cases, you may indeed have an intolerance to Armour. I had what I thought was the same problem, and it was because I didn't understand the fundamental differences between it and other concotions. The doctors who I trusted, never gave me the proper information, even in the face of my confused complaints.
Now that I'm taking Armour correctly (figured it out based on research, not by way of doctors), I can honestly say, its a great hormone replacer and I wouldn't part with it under any circumstance. Armour is like electricity...it can burn your house down in the form of lightening, or it can heat your food, and water and make your life really comfortable. It is all in the handling.
I do hope you both get your health back on track.