List of winners of Japanese third-tier football leagues Japan Football League (JFL) (1999–2013) Japan Football League (JFL) (1999–2013)

| Season | Winner | Runner_up | Third_place | Fourth_place |
|---|---|---|---|---|
| 1999 | Yokohama FC | Honda Motor | Mito HollyHock ↑ | Denso S.C. |
| 2000 | Yokohama FC (2) ↑ | Honda Motor | Denso S.C. | Otsuka Pharmaceuticals |
| 2001 | Honda Motor (2) | Otsuka Pharmaceuticals | Jatco F.C. | Sagawa Express |
| 2002 | Honda Motor (3) | Sagawa Express | Otsuka Pharmaceuticals | Sony Sendai |
| 2003 | Otsuka Pharmaceuticals | Honda FC | Ehime FC | Sagawa Express Osaka |
| 2004 | Otsuka Pharmaceuticals (2) ↑ | Honda FC | Thespa Kusatsu ↑ | YKK AP |
| 2005 | Ehime FC ↑ | YKK AP | ALO`s Hokuriku | Tochigi SC |
| 2006 | Honda FC (4) | Sagawa Express Tokyo | Sagawa Express Osaka | YKK AP |
| 2007 | Sagawa Express | Rosso Kumamoto ↑ | FC Gifu ↑ | ALO`s Hokuriku |