Jørgensen was appointed the bishop of Sør-Hålogaland on 17 November 2006 and took over those duties from Øystein Ingar Larsen on 28 January 2007.[2][3] Jørgensen had previously been the dean of Bodø Cathedral since 2000 and had for various periods been deputy for the bishop.
In 2000, Jørgensen supported the full inclusion of LGBT persons in the Church of Norway. He is considered to be one of the liberal bishops in the church's General Synod. A week before he became bishop, he gave an interview to a newspaper stating that he supported a ritual in church for same-sex couples to take part in a Civil union.[5][6][7]
In 2009, Jørgensen ordained a female priest that was unmarried and living with the father of her child. The issue of cohabitation of unmarried priests is a controversial topic in the Church of Norway. Some called for his resignation.[1][8]