The second relocated depot was built May–June 1891, and razed in January 1953 as part of the grade elimination project of the post-war era.

A temporary station was relocated west of the former location on January 12, 1953, and the current elevated structure entered service between December 14–18, 1953.

The project was estimated to cost the MTA $20 million, and was completed in the Summer of 2015.

The pocket track, which will be used for turning trains that begin or end their trips at Massapequa Station, would be installed east of the station, in the middle of the two Babylon Branch tracks that are platform-width apart at this point.

[5] The pocket track would be 1,700 feet (520 m) long, enough to fit a full 12-car train.