The station is located on the Hutt Valley section of the Wairarapa Line, 18.3 km (11.4 mi) north of Wellington.

The station is served by Metlink's electric multiple unit trains of the "Matangi" FP class.

The station served as the branch's terminus until the extension to Taitā (then known as Taita) opened fifteen months later in April 1947; at the same time the line south of Naenae was double-tracked.

Double track north of the station to Taitā opened in February 1953, and the line through Naenae was electrified on 12 September 1953.

[4] In 2023-4, the Naenae station subway was given a makeover with fresh render/waterproof/paint, lights, CCTV, public announcement system, entry canopies and cultural designs by Len Hetet.