Pagar Goemba was initially established in 1707 by Geshe Kuenga Gyeltshen. It is located about an hour’s walk uphill from Pagar village. A feeder road from a little further down the Chuzom check post toward Chapcha, leads to the Pagar village.
Geshe Kuenga Gyeltshen resided in a small temple known as Jangkhocheng located slightly above where the present temple stands. The Jangkhocheng is now in ruins. One day while Geshe Kuenga Gyeltshen was performing a ritual, a black crow picked up his Tingcha (a small ritual cymbal) and dropped it at the site of the present Gonpa. Taking it to be a good omen he built a small monastery there and started a monastic school with few monks. Once when the monks were having tea, Geshe Kuenga Gyeltshen pointed at one small monk and told he’ll be the one who will take over as the next Lama and expand the Gonpa. That small boy was Damchoe Gyeltshen. As said Damchoe Gyeltshen was appointed as the 2nd Pagar Lama.