The second branchial cleft cyst may arise anywhere from the tonsillar fossa to the supraclavicular area. It usually lies along the anterior border of the sternocleidomastoid muscle or deep into the muscle. Occurrence of the second branchial cleft cyst in the parapharyngeal space is extremely uncommon. We report one such case of second branchial cleft cyst arising from the parapharyngeal space and discuss its differential diagnosis and treatment modalities in detail.