The station building was designed by Urabesekkei, an architectural firm based in Osaka.

The design elements of the former station building were evocative of nearby Nijō Castle.

Nijō Station opened on 15 February 1897 and was the terminus of the Kyoto Railway (present-day San'in Main Line) until 27 April of the same year.

[3] The original station building was moved to its current location at the Kyoto Railway Museum on 1 April 1996.

[6][7] The Shinsenen and the Nijō Castle are within walking distance, however in case of traveling via subway, the adjacent station of Nijōjō-mae is closer.