It served as the terminus station for the commuter rail trains of Euskotren Trena lines to Durango, Bermeo, Eibar and Donostia for over one hundred years.

In 1906 the company was acquired by the Ferrocarriles Vascongados (Basque Country Railways), which meant the station would also become the start of line for services running to Elgoibar, San Sebastián, Zumarraga and other cities and towns across Gipuzkoa.

The new building would not only hold the terminus station of the railway services, but also the headquarters of the Ferrocarriles Vascongados, as well as a bell tower, something unusual at the time.

In 1977 the entire Ferrocarriles Vascongados network would become part of FEVE, the state-owned company for narrow-gauge railways, which was soon thereafter transferred to the Basque Government to form Euskotren in 1982.

In 1983 the station suffered extensive damage on its lower floor due to a flooding of the Bilbao estuary, which also destroyed the train depots.

[4] The station also serves the southern terminus for the Bilbao tram, including an at-grade platform and single track on one side of the building.

[6] After the opening of Metro Bilbao's Line 3, operated by Euskotren Trena, the trains coming from all destinations except from the Urdaibai line were rerouted through the new underground route that connects directly with Zazpikaleak/Casco Viejo station in central Bilbao from Kukullaga, bypassing Bolueta and Atxuri stations completely.

[8] The Basque Government and the administration of the rail network, Euskal Trenbide Sarea (ETS), announced in 2003 the intention of transforming the rail road section between Bilbao-Atxuri, Bolueta and Etxebarri into a tramway line, thus continuing the existing Bilbao tramway service which currently has its terminus at Bilbao-Atxuri, however not many actions have been taken towards this objective.