Werner Thissen (born December 3, 1938) is a German prelate of the Roman Catholic Church. He served as Archbishop of Hamburg from 2002 until 2014 when he resigned and became Archbishop Emeritus of Hamburg.
Born in Kleve, Thissen was ordained to the priesthood in Münster on June 29, 1966.
On April 16, 1999, he was appointed Auxiliary Bishop of Münster and Titular Bishop of Scampa. Thissen received his episcopal consecration on the following May 24 from Bishop Reinhard Lettmann, with Bishops Alfons Demming and Heinrich Janssen serving as co-consecrators.
He was named Archbishop of Hamburg by Pope John Paul II on November 22, 2002; he was installed as such on January 25, 2003.