Background: FDA Guidance for pharmacokinetic (PK) testing of levothyroxine (L-T 4 ) for interbrand bioequivalence has evolved recently. Concerns remain about efficacy and safety of the current protocol, based on PK analysis following supraphysiological L-T 4 dosing in euthyroid volunteers, and recent recalls due to intrabrand manufacturing problems also suggest need for further refinement. We examine these interrelated issues quantitatively, using simulated what-if scenarios testing efficacy of a TSH-based protocol and tablet stability and absorption, to enhance precision of L-T 4 bioequivalence methods. Methods: We use an updated simulation model of human thyroid hormone regulation quantified and validated from data that span a wide range of normal and abnormal thyroid system function. Bioequivalence: We explored a TSH-based protocol, using normal replacement dosing in simulated thyroidectomized patients, switching brands after 8 weeks of full replacement dosing. We simulated effects of tablet potency differences and intestinal absorption differences on predicted plasma TSH, T 4 , and triiodothyronine (T 3 ) dynamics. Stability: We simulated effects of potency decay and lot-by-lot differences in realistic scenarios, using actual tablet potency data spanning 2 years, comparing the recently reduced 95-105% FDA-approved potency range with the original 90-110% range. Results: A simulated decrease as small as 10-15% in L-T 4 or its absorption generated TSH concentrations outside the bioequivalence target range (0.5-2.5 mU=L TSH), whereas T 3 and T 4 plasma levels were maintained normal. For a 25% reduction, steady-state TSH changed 300% (from 1.5 to 6 mU=L) compared with <25% for both T 4 and T 3 (both within their reference ranges). Stability: TSH, T 4 , and T 3 remained within normal ranges for most potency decay scenarios, but tablets of the same dose strength and brand were not bioequivalent between lots and between fresh and near-expired tablets. Conclusions: A pharmacodynamic TSH-measurement bioequivalence protocol, using normal L-T 4 replacement dosing in athyreotic volunteers, is likely to be more sensitive and safer than current FDA Guidance based on T 4 PK. The tightened 95-105% allowable potency range for L-T 4 tablets is a significant improvement, but otherwise acceptable potency differences (whether due to potency decay or lot-by-lot inconsistencies) may be problematic for some patients, for example, those undergoing high-dose L-T 4 therapy for cancer.