2017/04/22 | Tonan Maebashi | | 1-0 | | Tokyo Int. University | | | | |
| Gifu Kyoritsu University | | 1-3 | | Niigata University | | | | |
| Blaublitz Akita | | 1-2 | | Kokushikan University | | | | |
| Nagano Parceiro | | 1-0 | | Suzuka Unlimited FC | | | | |
| Iwaki | | 8-2 | | Norbritz Hokkaido | | | | |
| Tochigi Uva | | 6-1 | | Parafrente Yonezawa | | | | |
| Nara | | 0-1 | | Vanraure Hachinohe | | | | |
| Azul Claro | | 1-0 | | Fukui United | | | | |
| Hokuriku University | | 0-2 | | Banditonce Kakogawa | | | | |
| FC Tokushima | | 1-2 | | MD Nagasaki | | | | |
| Miyazaki Sangyo-keiei University | | 2-1 | | Tokuyama University | | | | |
| Arterivo Wakayama | | 2-3 | | Maruyasu Okazaki | | | | |
| FC Osaka | | 4-1 | | Saga University | | | | |
2017/04/23 | Ryukyu | | 5-5 (3-5 Pen.) | | Imabari | | | | |
| Nirasaki Astros | | 1-5 | | Briobecca Urayasu | | | | |
| Giravanz Kitakyushu | | 10-0 | | Aruverio Takamatsu | | | | |
| Verspah Oita | | 2-1 | | Kochi United | | | | |
| Honda FC | | 3-1 | | Biwako Seikei Sport College | | | | |
| Gainare Tottori | | 0-1 | | Kagoshima United | | | | |
| YSCC | | 1-2 | | University of Tsukuba | | | | |
| Kataller Toyama | | 1-0 | | Amitie SC Kyoto | | | | |
| Grulla Morioka | | 2-0 | | Sony Sendai | | | | |
| SRC Hiroshima | | 1-0 | | Mitsubishi Mizushima | | | | |
| Kumamoto Teachers Club | | 0-4 | | Kagura Shimane | | | | |