The station is located on New York State Route 25A (Main Street), on the north side of the tracks, but is also accessible from Oakland Avenue, as well as Railroad Avenue and Union Street on the south side of the tracks.

One Suffolk County Transit bus – Route 51 – leads to the Bridgeport & Port Jefferson Ferry, approximately one mile to the north.

Designed by Stanford White and funded by the residents of the nearby Village of Belle Terre, it opened on July 29, 1903.

[citation needed] In 2019, the LIRR completed an extensive renovation of the station building, restoring it to its prototypical appearance at the turn of the twentieth century.

To the east of the station is the Port Jefferson Yard, which provides additional storage tracks.