Mucosa-associated lymphoid tissue (MALT) lymphoma is a low-grade B-cell lymphoma which arises from a complex organization of mucous membranes and lymphoid tissues. Such lymphomas have been reported as occurring in the head and neck region, including the major salivary glands, thyroid gland and the Waldeyer ring, but there are no reports on hypopharyngeal MALT lymphomas in Japan. We encountered a very rare case of hypopharyngeal MALT lymphoma that we were able to treat with curative resection via the endoscopic transoral surgery.