Hi Shirl, as far as I know the homeoapthy could not make you sensitive to the Thyroid medication.
BUt an abnormal thyroid function could make you sensitive to the homeopathic remedies and we'll be blaming the remedies.
Autoimmune thyroiditis can cause either hypothyroidism (Hashimotos) or hyperthyroidism (Graves) and various in between conditions, depending on patient symptomatology.
I really don't think making your own dosage adjustments is a good idea. I do agree the strange HEalth care System in the US (endless waiting for appointments, etc) leaves one trying to work things out onself.
But these are not medications that should be altered without medical supervision, though waiting 2 months for a lab test or doctors appointment does not help either.
All in all, a complicated case like yours needs supervision regularly, both on the homeopathic front as well as a cooperation from an MD to have your labwork and clinical evaluation regularly, as you are actively symptomatic.
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