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The First Reformed Dutch Church of Brooklyn was established in 1654 as one of three Collegiate Dutch in what would one day become Kings County - for the towns of Breucklyn, Flatbush and Flatlands. The first church for the congregation was constructed in 1666 near the intersection of Fulton and Smith Streets. According to Bailey, this church was replaced in about 1706. In 1810, the third church was constructed on Joralemon Street. A fourth church, designed by Minard Lafever, was constructed in 1835.

The First Presbyterian Church was one of the oldest Protestant congregations in the village of Williamsburgh. It was also one of the most short-lived and had a tempestuous start. The congregation was founded as part of the New School Presbyterian Synod on May 26, 1842. At its founding, the church had 15 members, seven male and eight female. That same year, a number of founding parishioners left the congregation to form the First Congregational Church of Williamsburgh.

The first mass in Greenpoint was celebrated in 1855 in a hall at the corner of Franklin and Eagle Streets. Later masses were held at a hall at the northeast corner of Manhattan Avenue and India Street. In 1856, Bishop Loughlin purchased lots on the south side of India Street between Manhattan Avenue and Oakland Street, and church structure was constructed on that site and dedicated in early 1858. Prior to 1872, the parish purchased the plot of land on the east side of Manhattan Avenue at the head of Milton Street from Samuel J. Tilden.

Immaculate Conception Church is commonly called St. Mary. Founded in 1847 as an offshoot of Sts. Peter & Paul for Irish Catholics living in East Williamsburg. Church constructed in 1853. The parish closed in about 2014 and merged with Most Holy Trinity.

Founded in 1845, originally a parish of the Diocese of New York.

Now St. Patrick-St. Lucy parish. The parish of St. Patrick was founded in 1843, prior to the establishment of the Diocese of Brooklyn.

Established in 1842.

Most Holy Trinity parish was  founded as the German Church of the Holy Trinity in 1841. It was the first National parish in the Brooklyn diocese, and officially the first Catholic parish in Williamsburgh (Sts. Peter and Paul began services in 1840, but was not formally established until 1844). Most Holy Trinity was also the mother church for a host of other German parishes over time. Holy Trinity was founded by Father John Raffeiner, a wealthy doctor-turned-priest from Austria.