The three species of woolly flying squirrels of the genus Eupetaurus are amongst the rarest and least studied mammals in the world. The different species are known to occur from only a few locations in the western, north-central and south-eastern margins of the Himalayas. Though the genus has been recorded in Bhutan, there has been no confirmed evidence until now. Here we confirm for the first time the presence of Eupetaurus in Bhutan and discuss some records of mammals and birds with which it co-exists. The woolly flying squirrel was photographed by camera trap during a rapid biodiversity survey in the north-eastern part of Jigme Dorji National Park. From the three widely disjunct populations of Eupetaurus, the external pelage and appearance of this specimen appears to most closely resemble Eupetaurus nivamons. This record warrants further study to confirm identification and better understand its morphology, habitat selection and distribution in Bhutan.