Kita-Nagano Station is served by the 37.3 km Kita-Shinano Line, and is 3.9 kilometers from the starting point of the line at Nagano Station.

[2] Some trains of the Iiyama Line continue past the nominal terminus of the line at Toyono Station and terminate at Nagano Station, stopping at this station en route.

[2] With the privatization of Japanese National Railways (JNR) on 1 April 1987, the station came under the control of East Japan Railway Company (JR East).

[2] From 14 March 2015, with the opening of the Hokuriku Shinkansen extension from Nagano to Kanazawa, local passenger operations over sections of the Shinetsu Main Line and Hokuriku Main Line running roughly parallel to the new Shinkansen line were reassigned to third-sector railway operating companies.

[3] From this date, Kita-Nagano Station was transferred to the ownership of the third-sector operating company Shinano Railway.