The station is served by 105 passenger trains each day operated by the Südostbayernbahn and frequented by about 10,000 travellers.

The station is located north of the centre of Mühldorf in the so-called “Upper Town” (Oberen Stadt).

The two streets are connected by Innere Neumarkter Straße, which passes under an underpass under the tracks to the east of the station area.

In the following years citizens' initiatives supporting the construction of a railway to Mühldorf were formed.

The decision was finally made in favour of a route from Munich via Mühldorf and Simbach towards Austria, which would also relieve the existing Munich–Rosenheim–Salzburg line.

A law of 5 October 1863 authorised the construction of a line from Munich to the Austrian border in Simbach.

Citizens' initiative committees were established and shortly before the inaugural of Mühldorf Gustav von Schlör (Bavarian Minister for Trade and Public Works 1866–71) was appointed an honorary citizen because of his support for the project, which would make Mühldorf station a railway junction.

A locomotive shelter was built east of the station for the Bavarian Eastern Railway.

A line was opened on 1 September 1879 from Neumarkt St. Veit to Pocking and it was extended to Passau in 1888.

Freight traffic of great importance was also won in the 1930s as a result of the development of the Bavarian Chemical Triangle.

The station building is open to the public and it contains a ticket office, a kiosk and a waiting room.

[11] The following table provides an overview of the length, height and usage of platforms: The station is located in the centre of the so-called “Mühldorf line star” (Liniensterns Mühldorf), this is operated by one of the regional networks of Deutsche Bahn, the SüdostBayernBahn.

[16] The EU then called for a partial redesign and the work restarted a year and a half later, in late 2010.

[17] The station is located at the planned Magistrale for Europe from Paris via Munich, Mühldorf and Vienna to Bratislava.