Nakano-fujimicho Station is served by the 3.2 km (2.0 mi) Hōnanchō branch of the Tokyo Metro Marunouchi Line from Nakano-sakaue to Hōnanchō, and is 1.9 km (1.2 mi) from Nakano-sakaue.

[1] During the daytime, the station is served by 3-car trains shuttling between Nakano-sakaue and Hōnanchō, but during the morning and evening peaks, due to its location next to the line's maintenance depot, the station is also served by some 6-car through trains starting and terminating here, which run to and from Ikebukuro at the eastern end of the main line.

[2] The station facilities were inherited by Tokyo Metro after the privatization of the Teito Rapid Transit Authority (TRTA) in 2004.

[3] In March 2010, to promote the release of the Cho-Den-O Trilogy of the Kamen Rider movies, a special marking was used on the trains coming to Nakano-fujimichō from Ueno Station, and Den-O's Rina Akiyama greeted 200 fans who rode on the first of those trains.

[4][5] In fiscal 2013, the station was the least used on the Marunouchi Line and the 125th-busiest on the Tokyo Metro network with an average of 18,285 passengers daily.