Thyroglobulin must pass endoplasmic reticulum quality control in order to become secreted for thyroid hormone synthesis. Defective thyroglobulin, blocked in trafficking, can cause hypothyroidism. Thyroglobulin is a large protein (~2750 residues) spanning regions I‐II‐III plus a C‐terminal Cholinesterase‐Like domain. The Cholinesterase‐Like domain functions as an intramolecular chaperone for regions I‐II‐III, but the folding pathway leading to successful thyroglobulin trafficking remains largely unknown. Here, informed by the recent three‐dimensional structure of thyroglobulin as determined by cryo‐electron microscopy, we have bioengineered three novel classes of mutants yielding three entirely distinct quality control phenotypes. Specifically, upon expressing recombinant thyroglobulin, we find that first, mutations eliminating a disulfide bond enclosing a 200 amino acid loop in region I has surprisingly little impact on the ability of thyroglobulin to fold to a secretion‐competent state. Next, we have identified a mutation on the surface of the Cholinesterase‐Like domain that has no discernible effect on regional folding yet affects contact between distinct regions and thereby triggers impairment in the trafficking of full‐length thyroglobulin. Finally, we have probed a conserved disulfide in the Cholinesterase‐Like domain that interferes dramatically with local folding, and this defect then impacts on global folding, blocking the entire thyroglobulin in the endoplasmic reticulum. These data highlight variants with distinct effects on endoplasmic reticulum quality control, inhibiting domain‐specific folding; folding via regional contact; neither; or both.This article is protected by copyright. All rights reserved.