Hakodate Station (函館駅, Hakodate-eki) is a railway station on the Hakodate Main Line in Hakodate, Hokkaido, Japan, operated by the Hokkaido Railway Company (JR Hokkaido).

Hakodate Station is the terminus of the Hakodate Main Line and the former Tsugaru-Kaikyō Line; Hakodate Municipal Transit streetcars stop at the adjacent Hakodate Ekimae Station.

In addition to local services, the following long-distance trains serve Hakodate Station.

The following services ended in March 2016 due to the Hokkaido Shinkansen's opening: From Shin-Hakodate-Hokuto Station to Shin-Aomori Station, which takes a similar route of the Hakuchō\Super Hakuchō. All services go through to Tokyo station, which means the two former sleeper trains had to be discontinued due to the Hokkaido Shinkansen's opening. An extension to Sapporo is currently under construction and will be completed in fiscal 2031.

The station has four platforms serving eight terminating tracks.

Hakodate station first opened on 10 December 1902.

The current station building was opened on 21 June 2003.^{[citation needed]}

Shinkansen services stop at Shin-Hakodate-Hokuto Station, approximately 18 km away from Hakodate Station since 26 March 2016, the day the Shinkansen station opened. "Relay" shuttle services (Hakodate liner) using three-car 733 series electric trains operate between Hakodate and Shin-Hakodate-Hokuto Station.