His Holiness Penor Rinpoche continued to build the supports, both physical and human, so that the Dharma would propagate.
In 1990 he received teachings from the renowned master, Khenpo Jigme Phutnsok Rinpoche that included Lama Yangtig, Nge She dron Me (Lamp of the Definite Understanding). He also received empowerments for Tendrel Nyesel, Lerab Lingpa's Vajrakilaya practice, as well as Khen Rinpche's own treasures.
His Holiness spent the early 90s training many monks, lopons and khenpos, stationing them in Himalayan communities throughout Asia to strengthen Buddhist practice in those regions. He continued to work hard to insure local traditions would not be lost throughout his life. In some areas, because of the lack of properly-trained teachers, who would normally have learned their skills in Tibet, the population had begun to drift towards other religious traditions. Thanks to the hard work of His Holiness, the traditions in those regions have been not only strengthened, but are more vibrant than ever before.
In 1992 he went to Palyul Monastery for the third time and bestowed the Rinchen Terzod for the third time. He also toured the many Palyul branch monasteries in the region benefitting them with teachings as well as financial support.
His Holiness the Dalai Lama, as requested by the entire Nyingmapa Community, appointed him as the Supreme Head of the Nyingma School in 1993, following in the footsteps of HH Dilgo Khyentse Rinpoche and HH Dudjom Rinpoche. That same year he established the Tsogyal Sehdrub Dargyeling Nunnery, on 27 November 1993.
His Holiness also travelled tocenters in Taiwan, Hong Kong and Singapore to grant teachings and empowerments and complete the connection with the students there. .