| Pos | Team | Pld | W | D | L | GF | GA | GD | Pts | Promotion |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | Honda FC (C) | 30 | 19 | 6 | 5 | 59 | 30 | +29 | 63 | |
| 2 | Sony Sendai | 30 | 16 | 7 | 7 | 60 | 34 | +26 | 55 | |
| 3 | FC Imabari (P) | 30 | 13 | 12 | 5 | 41 | 26 | +15 | 51 | Promotion to 2020 J3 League[a] |
| 4 | Tokyo Musashino City | 30 | 13 | 9 | 8 | 44 | 39 | +5 | 48 | |
| 5 | Tegevajaro Miyazaki | 30 | 11 | 8 | 11 | 37 | 34 | +3 | 41 | |
| 6 | Honda Lock | 30 | 10 | 11 | 9 | 41 | 39 | +2 | 41 | |
| 7 | Verspah Oita | 30 | 10 | 10 | 10 | 42 | 36 | +6 | 40 | |
| 8 | FC Osaka | 30 | 10 | 10 | 10 | 33 | 32 | +1 | 40 | |
| 9 | MIO Biwako Shiga | 30 | 11 | 7 | 12 | 27 | 40 | −13 | 40 | |
| 10 | Veertien Mie | 30 | 10 | 9 | 11 | 38 | 34 | +4 | 39 | |
| 11 | Maruyasu Okazaki | 30 | 9 | 11 | 10 | 30 | 30 | 0 | 38 | |
| 12 | Suzuka Unlimited FC | 30 | 9 | 9 | 12 | 43 | 47 | −4 | 36 | |
| 13 | ReinMeer Aomori | 30 | 9 | 9 | 12 | 40 | 44 | −4 | 36 | |
| 14 | Nara Club | 30 | 8 | 10 | 12 | 27 | 32 | −5 | 34 | |
| 15 | Matsue City FC | 30 | 5 | 10 | 15 | 26 | 51 | −25 | 25 | |
| 16 | Ryutsu Keizai Dragons (R) | 30 | 5 | 6 | 19 | 35 | 75 | −40 | 21 | Relegation to regional leagues |
Source: JFL website (in Japanese)
Rules for classification: 1) Points; 2) Goal difference; 3) Goals scored; 4) Head-to-head results; 5) Disciplinary points; 6) Draw
(C) Champions; (P) Promoted; (R) Relegated
Notes:
Rules for classification: 1) Points; 2) Goal difference; 3) Goals scored; 4) Head-to-head results; 5) Disciplinary points; 6) Draw
(C) Champions; (P) Promoted; (R) Relegated
Notes:
- ^ To qualify for promotion, a club must hold a 100 Year Plan status, obtain a J3 license (marked in bold in the table), and finish both in the top 4 of the JFL, and either 1st or 2nd among the promotion-eligible clubs.