A reserve team representing Partizani Tirana was created following this announcement, and they competed in 1948–49 Albanian First Division, where they won their first 5 games in a row before the competition was cancelled on 31 March 1949 by the Albanian Football Association due to Soviet pressure to leave the western format and return to the Soviet league format.

On 15 March 2013, Partizani B defeated IDS Tirana 8–1 away from home in an Albanian Third Division Group B game, making it the club's biggest ever victory.

They faced the First Division Group A second bottom side Sopoti Librazhd in the playoff which was original scheduled for 19 May 2016 at the Niko Dovana Stadium in Durrës[4] but was later moved to the Elbasan Arena in Elbasan, where the game ended in a 4–1 win for Partizani B following goals from Lauren Ismailaj, Jurgen Vatnikaj and a brace from Ardit Jaupaj.

Partizani B won the game and celebrated promotion to the First Division, but Sopoti Librazhd filed a complaint to the Albanian Football Association arguing that Patizani B had mainly used players from the Partizani first team, including Labinot Ibrahimi and Ylber Ramadani who had featured in the first team against Teuta Durrës the day before.

[5] However, due to stricter licensing measured enforced by the Albanian FA, First Division side Adriatiku Mamurras failed to meet the conditions to remain in the league and their place was given to Partizani B who were able to meet the necessary criteria, making them the only reserve team to have competed in the second tier of modern Albanian football.