A plaque on the inner north wall of the church near the upper church door provides information about the history of the building. It says: The first church stood on this site around the year 800. Emperor Charlemagne had the parish districts carefully defined at the time.
The documented news only begins in 1163. In this year Heinricus, presbyter de Vugene (Heinrich, priest of Fügen) is mentioned for the first time. The first documented priest in the parish of Fügen was a canon and even became bishop of Brixen in 1170.
Around 1330 the church was redesigned and enlarged. The early Gothic frescoes on the southern presbytery wall, above the left side altar and on the organ gallery date from this period. The church was consecrated in 1497 at the same time as the crypt and St. Michael's Chapel. At that time, there was no other parish in the entire Zillertal except Fügen on the left side of the valley. In the 17th century only the large parish of Fügen existed.
In the second half of the 18th century, the Fügen sculptor Franz Xaver Nißl provided the church with new altar structures.