On 22 August 2012 club hired Azamat Abduraimov as head coach to help Andijan remain in the top division, however the club was relegated to the Uzbekistan First League.

On 26 September 2014 Edgar Gess was appointed as the club's new head coach.

On October 6, 2024, Andijon won their first ever Uzbekistan Cup, scoring a 120th-minute winning goal against FC Navbahor in the final.

Because it gave them the opportunity to play in the AFC Champions League Two, first ever continental competition in club's history.

Note: Flags indicate national team as defined under FIFA eligibility rules; some limited exceptions apply.