Summary: A 3‐year‐old Comptois gelding with a history of chronic fistulation at the base of the right ear was referred for the treatment of a unilateral ectopic tooth in the right temporal region. Cone‐beam computed tomography (CBCT) confirmed the presence of an ectopic tooth in the right mandibular fossa. The ectopic tooth was associated with a draining tract running through the zygomatic process of the right temporal bone. A total mandibular condylectomy provided a direct approach to the ectopic tooth, which was subsequently successfully removed. Long‐term follow‐up confirmed a satisfactory outcome despite the need for repeated debridement and persistence of a small draining tract 15 months postoperatively. Computer‐assisted surgery (CAS) provided precise anatomical intraoperative orientation for the condylectomy and subsequent removal of the ectopic tooth close to the calvarium. The use of CAS greatly facilitated surgery and minimised the risks of important collateral damage. [ABSTRACT FROM AUTHOR]