The following is a list of football clubs in Kyrgyzstan. The clubs mentioned below are currently competing in the top divisions of the Kyrgyz football league system.

Kyrgyzstan League

• FC Abdish-Ata Kant
• FC Abdish-Ata-91 previously Abdish-Ata-FShM Kant
• FC Ak-Bura Osh
• FC Ak-Maral Tokmok previously Spartak Tokmok
• FC Ak-Zhol previously Al-Fagir Aravan, Dinamo Aravan, Sharab-K Aravan, Ak-Bula Aravan, Druzhba Aravan, Yangiyul Aravan
• FC Ala-Too Naryn
• FC Alamudun previously Luch Altyn-Taala Alamudun, Dinamo Alamudun
• FC Alay previously Alay-Osh-Pirim, Shakhtyor Osh
• FC Aldiyer Kurshab
• FC Alga Bishkek previously Aviator-AAL Bishkek, SKA-Shoro Bishkek, SKA-PVO Bishkek, Alga-PVO Bishkek, Alga-RIIF Bishkek, Alga Frunze, Spartak Frunze, Iskra Frunze, Trudovye Rezervy Frunze, Zenit Frunze
• FC Alga-2 Bishkek previously Alga Bishkek, Alga-d Frunze
• FC Ata-Spor Bishkek
• FC Bazar-Korgon-Babur
• FC Dinamo Ala-Buka
• FC Dinamo Kant
• FC Dinamo-Manas-SKIF Bishkek previously Shumkar-Dastan Bishkek, Shumkar Bishkek, Shumkar-SKIF Bishkek
• FC Dinamo-Polyot Bishkek previously Dinamo-Erkin Farm Bishkek, Erkin Farm Bishkek, CAG-Dinamo-MVD Bishkek, Dinamo-Oil Bishkek, Dinamo Frunze
• FC Dinamo-UVD Osh previously Dinamo-Alay Osh, Dinamo Osh
• FC Dordoi Bishkek previously Dordoi-Dynamo Naryn, Dordoi-Zhashtyk-SKIF Naryn, Dordoi Naryn
• FC Dordoi-Plaza
• FC Dostuk Uzgen previously Kara-Shoro Uzgen
• FC Dzhalal-Abad previously Asyl Jalal-Abad, Kambar-Ata Jalal-Abad, Doma Ata Jalal-Abad, Dinamo-KPK Jalal-Abad, Dinamo Jalal-Abad, Kokart Jalal-Abad, Khimik Jalal-Abad, Stroitel Jalal-Abad
• FC Ekolog Bishkek
• FC Energetik Karaköl
• FC Instrumentalshchik Bishkek previously Instrumentalshchik Frunze
• FC Issyk-Kol Karakol previously FC Kol-Tor Karakol, FC Karakol
• FC Kant previously Kant-77
• FC Kant-Oil previously Han-Tengri Kant
• FC Kelechek Osh
• FC Khimik Kara-Balta previously Jayil-Baatyr Kara-Balta, Bakay Kara-Balta, KVT Dinamo Kara-Balta, KVT Khimik Kara-Balta
• FC Khimik Suzak
• FC Lokomotiv Jalal-Abad
• FC Manas-Ordo Talas previously Manas-Dinamo Talas, Boo-Terek Talas, Manas Talas, Dinamo-Manas Talas, Namys-APK Talas
• FC Metallurg Kadamjay
• FC Muras-Sport Bishkek
• FC Neftchi Kochkor-Ata previously Neftchi-KPK Kochkor-Ata, Neftchi-KRS Kochkor-Ata
• FC Nookat
• FC Olimpia-85 Bishkek
• FC Orto-Nur Sokuluk previously Frunze Sokuluk, Dinamo Sokuluk, SKA-Dostuk Sokuluk, Dostuk Sokuluk
• FC Pivo Belovodskoye previously Maksat Belovodskoye
• FC Polyot Bishkek previously SC Sverdlovskogo RUVD Bishkek
• FC Rotor Bishkek merger of FC Instrumentalshchik Bishkek and Selmashevets (Torpedo Frunze).
• FC RUOR-Guardia Bishkek previously SKNG Bishkek, National Guard Bishkek, National Guard-AiK Bishkek, AiK Bishkek
• FC Shakhtyor Kyzyl-Kiya previously FC Kyzyl-Kiya, Semetey-Dinamo Kyzyl-Kiya, Semetey Kyzyl-Kiya
• FC Shakhtyor Tashkömür
• FC Sher-Ak-Dan Bishkek previously Sher Bishkek
• FC Shoro Bishkek
• FC SKA-Alay Osh previously Alay-Oshpirim Gulcha, Alay Gulcha
• FC Svetotekhnika Mayli-Su
• Team Kyrgyzstan U-17
• Team Kyrgyzstan U-21
• FC Uchkun Kara-Suu
• FC Zhashtyk-Ak-Altyn Kara-Suu previously Zhashtyk Osh, Ak-Altyn Kara-Suu, Aka-Atyn Kara-Suu

Kyrgyzstan League Second Level

• FC Nashe Pivo previously Abdish-Ata-2 Kant