The station is located in the network area of the Münchner Verkehrs- und Tarifverbund (Munich Transport and Tariff Association, MVV) and is served by line 7 of the S-Bahn, which is operated by Deutsche Bahn.

The station was established on 27 July 1891 as a terminus when the Isar Valley Railway from Munich was put into operation.

On 24 October 1886 the Bavarian government issued a concession for the building of a metre-gauge railway from Munich via Wolfratshausen to Rottmannshöhe on Lake Starnberg.

Its proponent, Siegfried Klopfer had proposed to build the line to standard gauge in 1885.

On 27 September 1888, Wolfratshausen came to an agreement with the railway company, which promised to build a road between the station and the marketplace.

On 6 November 1889, responsibility for the construction and operation of the line was taken over by Lokalbahn AG (LAG).

At the same time it was decided to abandon the terminus at Rottmannshöhe and to instead build the line from Wolfratshausen via Eurasburg to Bichl.

The line to Eurasburg was opened on 1 June 1897 and it extended to Bichl to connect with the State Railway from Tutzing to Kochel on 23 May 1898.

In addition, the capacity of the carriage weighbridge in front of the freight shed was raised from 20 to 30 tons.

East of the wagon shed, a rail connection was built to the icehouse of the Eberl-Faber brewery.

Thus from 1915 fewer trains were run on the railway and only third class accommodation was offered between Wolfratshausen and Munich.

Eleven pairs of trains did not run each day between Munich and Wolfratshausen again until the end of 1933; this was made possible by financial support from the municipalities and the reduction the parallel bus services.

[13] In the Second World War from 1940 to 1941 a siding was built that branched off the Isar Valley Railway at Wolfratshausen station to a munitions factory in Geretsried.

Deutsche Reichsbahn planned to build its own freight yard south of Wolfratshausen for munition shipments, but this was never put into effect.

[14] As the destruction of Munich increased, Deutsche Reichsbahn established a connection from the siding to the south, producing a triangular junction in Wolfratshausen, allowing freight trains to run via Bichl and Tutzing.

As part of the Isar Valley Railway was destroyed between 1943 and 1944 by air raids, regular passenger services could not be resumed until 1946.

On 31 May 1959, Deutsche Bundesbahn closed the Beuerberg to Bichl section due to low patronage and the poor condition of the track.

Among other things, a new 76 centimetre high central platform was built, which now has a barrier-free even-height level crossing over track 1.

The new annex houses a waiting room and a McDonald's restaurant, while the old building contains DB's travel centre.

Wolfratshausen station formerly had a rail connection to the icehouse of the Eberl-Faber brewery, but this has been closed and demolished.

[23] Deutsche Bahn initiated the planning approval process in 2010 for an extension of line S 7 from Wolfratshausen to Geretsried which was scheduled for completion in 2015.

Instead of using the existing siding to Geretsried, the new line would be built via Gelting, branching from the route of the Isar Valley Railway south of Wolfratshausen station.