Additional features include a guesthouse, expansive gardens, a library, an ancient refectory, and the Well of the Martyrs, as well as apartments where monks reside.

Subsequent attacks in 434 and 444 AD caused further destruction,[10] and a fourth Berber raid in the late 6th century severely damaged the church and the fortified tower.

He initiated the restoration of the monks' apartments and repaired the water well where the Berbers had washed their swords after the massacre of the Forty-Nine Martyrs of Scetis.

Additionally, Pope Shenouda allocated approximately 300 acres of surrounding desert for land reclamation, established a private papal retreat, and facilitated the introduction of electricity to the monastery.

Within the monastery complex, several important buildings can be found, notably a fortress situated in the northwest corner.

To the north, a former second row of apartments has since collapsed and has been replaced by a new guesthouse built by the monastery's head, Father Peter, in 1926.

[21] Numerous expansions occurred during Pope Shenouda III's tenure, particularly on the southern side behind the ancient wall, where a retreat house for newly ordained priests was constructed, along with a four-story guesthouse.

[22] The apartment called Alqalali serve as the living quarters for monks and typically consist of two rooms, a bathroom, and a small reception area.

[23] The windows of both the apartment and the Mahbasa are designed with southern openings to ensure proper ventilation during both winter and summer.

In addition, another building shaped like the letter "T" was constructed, featuring three floors that house around 45 apartments, each equipped with an attached bathroom.

A water tank with a capacity of 89 cubic meters is also present, which includes recovery rooms for individuals requiring special medical care.

Its origins can be traced back to the late 11th or early 12th century, suggesting that the corridor is not structurally distinct from the dining hall itself or the building in the northwestern corner of the church, which shares its historical context with the monastery's fort.

[33] The current fortress of the Monastery of Saint Pishoy dates back to the late 11th century, constructed after the Berber raid in 1096 that destroyed the earlier structure.

This earlier fortress was reportedly commissioned by the Roman emperor Xenon in the 5th century after learning that his daughter,[34] Princess Ilaria, had fled his palace to seek refuge there as a nun.

[36] The first floor of the fortress features an entrance corridor, with a hall to the east comprising six units covered by domes supported by piers.

This current church was reconstructed in the 9th century following the fifth Berber raid on the monastery and incorporates numerous architectural elements from various historical periods.

[41] In 1330, during the papacy of Benjamin II, the church underwent repairs due to damage inflicted by termites on the wooden structures.

Architecturally, the church is characterized by a long design that adheres to basilica-style elements, comprising a nave, two side aisles, a circular western wing, a transverse choir, and three altars.

Currently, it serves primarily as a storage area and replaced an earlier structure that collapsed at an unknown time.

It is currently divided into a nave and a chancel, separated by a wooden partition, and features a single semicircular sanctuary adorned with a simple veil.

The body of the church is topped with a semicircular dome, supported by small arches, dating back to the 14th century.

[46] A small door to the north of the sanctuary opens into a narrow corridor with a barrel vault that leads to the baptismal chamber.