The monastery of Saint Bishoy comprehend eleven churches, the most famous old church of them are:
Ancient church of Saint Bishoy:
The Church is from the fourth century and embraces three sanctuaries.
The main sanctuary is dedicated to Saint Bishoy, and is connected with the Khurus through a high portal with ornate wooden panels dating to the Fatimid Period.
The northern sanctuary is dedicated to the Holy Virgin Mary. The southern sanctuary is dedicated to John the Baptist and it has some ancient painting on the eastern wall. The feretory for the body of St. Bishoy and the relics of Saint Paul of Temmah are situated in the north eastern corner of the khurus, while those for the body of Pope Benjamin II is in the south western corner of the nave.
The nave has a precious wooden pulpit which is dated to the sixth century, it was used by a spiritual father to preach his disciples, or a priest to teach the people the Christian faith.
The pulpit is made of wood, It has a square area of 2x2m2 and the pulpit balustrade is 1.5m from the church floor, it is fixed by a wooden column and rests on a wall that separates the first and second Khurus.
The church has an icon of the Holy Virgin Mary dated to the fourteenth century and an icon of St. George dated to the fifteenth century.
The church has a wooden door seven meters high, separating the two bays of the nave dated to the eleventh century.
The church of St. Iskhyrun:
The Church is accessed from the south side of the Khurus of St. Bishoy church.
The church has a sanctuary dated to the fourth century, though it is a parekklesion of the ancient church of St. Bishoy and was separated at the fourteenth century.
The relics of the holy martyr Saint Iskhyrun are kept under the alter.
Pope Benjamin brought his relics from St. Samuel Monastery in the fourteenth century, because it was an isolated monastery that was attacked by thieves and mercenaries.
The church has one sanctuary with an ancient veil dated to the eleventh century.
The church of the Holy Virgin Mary and Pope Benjamin I
The church is located to the northern corner of the main church of St. Bishoy and accessed from the Khurus of that church. The Sanctuary dated to the fourth century, the eastern corner is covered with remains of frescos dated to the eleventh century, whereas its veil is dated to the eighteenth century (1489MD)
The church of Saint George:
The church entrance is near the southeast corner of the main church. I has two sanctuaries, one dedicated to St. George and the other is dedicated to Virgin Mary.
Some of the relics of St. George exists in that church.
Holy Virgin Mary Church at the fortress:
The church is dated to the fifth century at the second storey of the fortress, and consists of three sanctuaries.
The main sanctuary is dedicated to the Holy Virgin Mary. The north sanctuary is dedicated to Bishop Rewais and Bishop Abraam, after the Holy Synod recognized Bishop Abraam of Fayoum and Giza as Saint in 1963 AD
One of the monks wrote on the north wall of the sanctuary marking the occasion of St. Ignatius, Patriarch of Antioch visit on Saturday 1089 MD, 1473 AD by black font.
The Southern sanctuary is dedicated to three Makars, and St. Samuel the confessor.
The church of Archangel Michael:
The church is located on the third floor of the fortress and is dated to the fifth century. Likewise all of the Egyptian monasteries the church on the third floor of the fortress is dedicated to archangel Michael as he is the guarding angel; the old tradition says: “Archangel Michael is the guarding angel of monks”
The church has a beautiful veil dated to the ninth century and was restored in 1792 AD by Ibrahim El Gohary then in 1935 AD it was restored by Pope Youanes XIX
