The church also has an adjacent seminary, the Monasterio de Guadalupe, which admits young professionals for priestly and religious vocation.

This foundation was declared a domus formata or a community under the advocacy of Our Lady of Grace through a Provincial Chapter on March 7, 1601.

A wooden house and a stairs of stone of around one hundred steps were built in order to accommodate the pilgrims who in turn never failed to donate money.

In 1882, the monastery was converted for three years into an asilo to house the orphans of the victims of the 1882 cholera epidemic in Manila, and in 1885 it served as Escuela de Artes y Oficios, among whose professors were the San Pedro brothers, Melchor and Gaspar.

The stone was quarried from the Guadalupe mountains, and lime was mixed in the many ovens and factories in operation nearby to make tiles, bricks, and large earthenware.

For the first 30 years, the monastery depended on the alms contributed, as decreed by the chapters, from the houses of Bacolor, Parañaque, Malate, Taguig, Pasig, Bay (Laguna), Guagua and Lubao.

From this time, since the church was finished and since the naos started coming in 1632, "the house will be self-sufficient to support a few religious".

New repairs were discussed during the Chapter held on June 10, 1691, which authorized the Provincial, Francisco Zamora to donate more funds to Buenaventura Bejar to fortify the church and build the buttresses to support the vault.

In 1706, Father Provincial Juan Olarte informed the fathers that the church needed urgent repair of the floor, the tiles, wooden platforms to restore the soleras of the living room, to replace partition walls with bricks, to make new corridors with windows, and to repair the belfry.

The father provincial suggested to the definitory that "due to the shortness of funds and the low income of Guadalupe, the Province must help, especially now that the monastery has become a stopping place for governors and bishops coming to these Islands."

They desecrated the church and sacked the tombs; images of saints were defiled and robbed of their decorations and jewelries.

The image of Our Lady of Guadalupe was spared due to the timely intervention of an Irish official who brought it to Pasig for safekeeping until 1764.

A replica was made after six years by Melchor and Gaspar San Pedro to replace the original, and this image was venerated until 1899 when it was lost in the Philippine–American War.

During the Chapter held on December 5, 1881, the father provincial authorized the prior, José Corugedo, to rebuild the church.

Celestino Fernández, prior of Guadalupe in 1889, was authorized to repair the church flooring, a mosaic-set-on-molave wood already rotten and the roof of the pantheon.

Arsenio Pioquinto revived the church amid the nightly stoning of Casa del Clero, with the aid of Makati Mayor Nemesio Yabut.

Rodolfo Arreza, as prior in 1983 transformed the old Casa del Clero, as the San "Agustin Seminary" for minor college seminarians.

However, this ended as the Augustinians transferred administration of the church and the Monasterio de Guadalupe to diocesan clergy on June 16, 2024.

[11] The massive buttresses create a vertical movement, stopped only by the roundness of windows, statues, niches and the semicircular arch of the main entrance.

Leaf carvings above the main recessed entrance, niches, windows and around the Tympanum lightens the massive character of the structure which have touches of the Baroque.