Shirl, By compliance I meant that you, your practitioner, and your allopatic medico all work together to reach an outcome that benefits. You don't all have to agree completely, but noone should deny pathological assessments that clearly say the thyroid function is contrary to what you, or the "alternative practitioner" want to believe it should be.
I've only had experience with treating people diagnosed with Grave's Disease (successfully) - so I may out of my depth here. But I couldn't imagine myself disregarding pathological test results in these cases. And in the end (thankfully) these reports confirmed the potential of homoeopathy as opposed to the "God-endocrinologist-specialist" who prophesised otherwise.

Good luck.