| Pos | Team | Pld | W | D | L | GF | GA | GD | Pts | Promotion or relegation |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | Vanraure Hachinohe | 25 | 15 | 6 | 4 | 33 | 16 | +17 | 51 | Promotion to the 2026–27 J2 League |
| 2 | Tochigi City FC | 25 | 14 | 6 | 5 | 41 | 28 | +13 | 48 | |
| 3 | Kagoshima United | 25 | 12 | 9 | 4 | 48 | 27 | +21 | 45 | Qualification for the promotion play-offs |
| 4 | FC Osaka | 25 | 13 | 6 | 6 | 36 | 21 | +15 | 45 | |
| 5 | Tegevajaro Miyazaki | 25 | 12 | 8 | 5 | 35 | 27 | +8 | 44 | |
| 6 | Nara Club | 25 | 11 | 8 | 6 | 34 | 26 | +8 | 41 | |
| 7 | Giravanz Kitakyushu | 25 | 10 | 4 | 11 | 26 | 26 | 0 | 34 | |
| 8 | Tochigi SC | 25 | 9 | 6 | 10 | 22 | 24 | −2 | 33 | |
| 9 | SC Sagamihara | 25 | 8 | 9 | 8 | 26 | 30 | −4 | 33 | |
| 10 | Zweigen Kanazawa | 25 | 9 | 5 | 11 | 29 | 31 | −2 | 32 | |
| 11 | Matsumoto Yamaga | 25 | 8 | 8 | 9 | 26 | 28 | −2 | 32 | |
| 12 | Gainare Tottori | 25 | 9 | 5 | 11 | 23 | 27 | −4 | 32 | |
| 13 | Fukushima United | 25 | 8 | 8 | 9 | 41 | 51 | −10 | 32 | |
| 14 | Kochi United | 25 | 8 | 7 | 10 | 34 | 42 | −8 | 31 | |
| 15 | Ryukyu Okinawa | 25 | 7 | 7 | 11 | 24 | 28 | −4 | 28 | |
| 16 | Thespa Gunma | 25 | 6 | 9 | 10 | 34 | 38 | −4 | 27 | |
| 17 | Kamatamare Sanuki | 25 | 6 | 7 | 12 | 26 | 32 | −6 | 25 | |
| 18 | Nagano Parceiro | 25 | 6 | 7 | 12 | 18 | 33 | −15 | 25 | |
| 19 | FC Gifu | 25 | 5 | 8 | 12 | 26 | 39 | −13 | 23 | Qualification for the relegation/promotion play-offs |
| 20 | Azul Claro Numazu | 25 | 3 | 9 | 13 | 29 | 37 | −8 | 18 | Relegation to the 2026–27 JFL |
Updated to match(es) played on 31 August 2025. Source: Meiji Yasuda J3 League, J.League Data Site
Rules for classification: 1) Points; 2) Goal difference; 3) Goals scored; 4) Head-to-head points; 5) Head-to-head goal difference; 6) Head-to-head goal scored; 7) Fair-play points.
Rules for classification: 1) Points; 2) Goal difference; 3) Goals scored; 4) Head-to-head points; 5) Head-to-head goal difference; 6) Head-to-head goal scored; 7) Fair-play points.