- promoted, relegated, Cup Qualifier See Rank Key
|Rk||Squad||MP||W||D||L||GF||GA||GDiff||Pts||Attendance||Top Team Scorer||Goalkeeper||Notes|
|1||Consa Sapporo||42||25||10||7||65||33||+32||85||14,559||Ken Tokura - 19||Gu Sung-yun||Promoted|
|2||S-Pulse||42||25||9||8||85||37||+48||84||11,291||Jong Tae-se - 26||Rikihiro Sugiyama||Promoted|
|3||Yamaga||42||24||12||6||62||32||+30||84||13,631||Hiroyuki Takasaki - 16||Daniel Schmidt||→ Semi-final|
|4||Cerezo Osaka||42||23||9||10||62||46||+16||78||12,509||Kenyu Sugimoto - 14||Kim Jin-hyeon||Promoted, → Semi-final|
|5||Kyoto Sanga||42||18||15||9||50||37||+13||69||6,524||Yuki Horigome, Koji Yamase... - 7||Takanori Sugeno||→ Semi-final|
|6||Fagi Okayama||42||17||14||11||58||44||+14||65||10,017||Yuki Oshitani - 14||Hirotsugu Nakabayashi||→ Semi-final|
|7||Machida Zelvia||42||18||11||13||53||44||+9||65||5,123||Yuki Nakashima - 13||Toshiyasu Takahara|
|8||Yokohama FC||42||16||11||15||50||51||-1||59||4,892||Ibba Laajab - 18||Yuta Minami|
|9||Vortis||42||16||9||17||46||42||+4||57||4,565||Daiki Watari - 12||Toru Hasegawa|
|10||Ehime FC||42||12||20||10||41||40||+1||56||4,089||Toyofumi Sakano - 12||Tsuyoshi Kodama|
|11||JEF United||42||13||14||15||52||53||-1||53||10,292||Yamato Machida - 11||Yuya Satō|
|12||Renofa||42||14||11||17||55||63||-8||53||6,654||Masato Nakayama - 11||Jun Ichimori|
|13||Mito HollyHock||42||10||18||14||45||49||-4||48||5,365||Kohei Mishima - 9||Takashi Kasahara|
|14||Montedio||42||11||14||17||43||49||-6||47||6,254||Masashi Oguro - 9||Norihiro Yamagishi|
|15||V-V Nagasaki||42||10||17||15||39||51||-12||47||5,225||Ryo Nagai - 17||Takuo Ōkubo|
|16||Roasso||42||12||10||20||38||53||-15||46||5,543||Koki Kiyotake - 12||Akihiro Sato|
|17||Thespa Gunma||42||11||12||19||52||66||-14||45||4,744||Yusuke Segawa - 13||Keiki Shimizu|
|18||Tokyo Verdy||42||10||13||19||43||61||-18||43||5,402||Yoshiaki Takagi - 9||Ryota Suzuki|
|19||Kamatamare||42||10||13||19||43||62||-19||43||3,686||Tetsuya Kijima - 11||Kenta Shimizu|
|20||FC Gifu||42||12||7||23||47||71||-24||43||5,662||Léo Mineiro - 13||Yoshinari Takagi|
|21||Zweigen||42||8||15||19||36||60||-24||39||4,179||Masato Yamazaki - 7||Yoshinobu Harada||→ Japanese 2/3 Relegation/Promotion Playoffs|
|22||Giravanz||42||8||14||20||43||64||-21||38||3,224||Kazuki Hara - 17||Nobuyuki Abe||Relegated|
Fagi Okayama won match in normal time and advance to Final.
Japanese 2/3 Relegation/Promotion Playoffs
Squad Standard Stats 2016 J2 League
Squad Goalkeeping 2016 J2 League
Squad Shooting 2016 J2 League
Squad Playing Time 2016 J2 League
Squad Miscellaneous Stats 2016 J2 League
Nationalities 2016 J2 League
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