[2] In 1589, by the decree of the "Superior Govierno", a church made up mainly of adobe (volcanic tuff) was built.

The church was transferred to its site in the present poblacion (town center) due to the attacks of the native Aetas.

In 1668, Fray Nicolas Santiago started the construction of the stone church that measured "sixty yards long by wide twelve and a half wide" (60 by 12.5 yards (180 by 38 ft; 54.9 by 11.4 m) The church also served as one of the prototypes of city planning in accordance to the Spanish government's reduccion policy; Meycauayan was among the first towns in the colony that has the parish church and the city or municipal hall adjacent to each other, if not housed within the same vicinity.

The tower belfry housed five bells named Maria Concepcion, the biggest, which was made by order of Fr.

Antonio de Guadalajara in 1878; the San Francisco, dedicated to the town's patron saint made by the order of Fr.

As a result of a furious typhoon, the entire town got flooded in 1802, causing much damages that the value of a sack of rice reached four pesos with four reales the following year.

Gascueña has showed all the kind virtues and charity to the poor, to whom he never denied alms whether they may be their parishioner or from other towns.

Benito conducted repairs on several damages inside the church and commissioned a new main altarpiece.

Both the Meycauayan Church and convent were occupied and became the temporary headquarters of the American soldiers in May 1899 after it was captured from the Filipinos revolutionaries during the Philippine–American War.

Artifacts such as old memorabilia, statues, church vestments, records, ciboriums and chalices are some of the casualties of the fire.

In 1984 one year after Former Senator Ninoy Aquino's assassination, the church became the refuge of political activist when the marchers commemorating the anniversary of Ninoy's untimely death in a political march called Tarlac-to-Tarmac were prevented from entering Metro Manila by the Philippine military with a barricade on MacArthur Highway, between Meycauayan and Valenzuela towns.

The church recently had its interior walls restored and its sanctuary renovated recreating the neoclassic altarpiece of Fr.

The 5-pound (2.3 kg) bells were believed taken as war booty from the Mercauayan Church, after it was captured and headquartered by the Americans.

A paper note with inscription is attached to the wooden block of the bells that reads: “Taken from the Church at MEYCAUAYAN, Luczon (sic) Islands after bombardment by Utah Battery March 29, 1899.

Thomas, Co. A Battalion of Engineers.”[6] The bells were found by archivist Monte Kniffen of the Sisters of Mercy in Omaha, Nebraska in July 2011 among a set of properties that were originally in the possession of their convent in Red Bluff, California.

Foreign Affairs Secretary Albert Del Rosario turned over the Philippine–American War artifact to Director Jeremy Barns of the National Museum of the Philippines on March 9, 2012.

[8] The Roman Catholic Diocese of Malolos received the bells on August 6, 2012, and became part of the Diocesan Museum.