Early history The original station at this location was a two-track side platform station that ran south from Church Avenue, whereas the current station runs to the north. At a point about south of Church Avenue, a clear difference in the form of the concrete retaining wall is visible on both sides of the right-of-way. This marks the point where the original Brighton Beach Line transitioned from an open-cut line depressed below ground level to a surface railroad for the remainder of the run to
Coney Island. The line south of this point was converted from a two-track surface line to a four-track grade-separated line in 1907, and the portion north of this point was rebuilt from a two-track open cut to a four-track open cut in 1919. On August 1, 1920, a tunnel under
Flatbush Avenue opened, connecting the Brighton Line to the
Broadway subway in Manhattan. At the same time, the line's former track connections to the
Fulton Street Elevated were severed. Subway trains from Manhattan and elevated trains from
Franklin Avenue served
Brighton Line stations, sharing the line to
Coney Island.
Renovations During the 1964–1965 fiscal year, the platforms at Church Avenue, along with those at six other stations on the Brighton Line, were lengthened to to accommodate a ten-car train of -long cars, or a nine-car train of -long cars. In 1981, the
Metropolitan Transportation Authority (MTA) listed the station among the 69 most deteriorated stations in the subway system. In 1982, the MTA began renovating the station. In 2019, as part of an initiative to increase the
accessibility of the New York City Subway system, the MTA announced that it would install elevators at the Church Avenue station as part of the MTA's 2020–2024 Capital Program. In November 2022, the MTA announced that it would award a $965 million contract for the installation of 21 elevators across eight stations, including Church Avenue. In addition to the new elevators, this project included two new staircases. To accommodate the work, all B trains were rerouted to run local between Prospect Park and Kings Highway. Additionally, southbound trains bypassed the station from August 4 to November 23, 2024; northbound trains skipped the station until February 17, 2025. The
MTA also announced in 2025 that a customer service center would open at the station. This customer service center, along with the new staircases and elevators, opened on November 10, 2025. ==Station layout==