Juntendo Univ.: every transfer in and out, fees paid and earned, squad market value.
| Date | Player | From | To | Fee |
|---|---|---|---|---|
| 2027-01-01 | Ryosuke Irie | Juntendo Univ. | Vissel Kobe | Free |
| 2026-04-01 | Nicholas Guimarães | Juntendo Univ. | Ichikawa SC | Free |
| 2025-04-01 | Nicholas Guimarães | Ichifuna HS | Juntendo Univ. | Free |
| 2025-02-01 | Takuro Iwai | Juntendo Univ. | JEF Utd. Chiba | Free |
| 2025-02-01 | Taisei Inoue | Juntendo Univ. | Sagan Tosu | Free |
| 2023-04-01 | Ryosuke Irie | Teikyo HS | Juntendo Univ. | Free |
| 2023-02-01 | Taichi Yamasaki | Juntendo Univ. | Sanf. Hiroshima | Free |
| 2022-03-01 | Motoki Nagakura | Juntendo Univ. | Tokyo United | Free |
| 2021-04-01 | Takuro Iwai | Hig. Fukuoka HS | Juntendo Univ. | Free |
| 2021-04-01 | Taisei Inoue | High School (J) | Juntendo Univ. | Free |
| 2021-02-01 | Naohiro Sugiyama | Juntendo Univ. | Roasso Kumamoto | Free |
| 2020-02-01 | Reo Hatate | Juntendo Univ. | Kawasaki Front. | Free |
| 2019-04-19 | Reo Hatate | Juntendo Univ. | Kawasaki Front. | Loan |
| 2019-04-01 | Taichi Yamasaki | Sanfrecce U18 | Juntendo Univ. | Free |
| 2019-02-01 | Shintaro Nago | Juntendo Univ. | Kashima Antlers | Free |
| 2018-08-10 | Reo Hatate | Juntendo Univ. | Kawasaki Front. | Loan |
| 2018-04-01 | Motoki Nagakura | Urawa Reds U18 | Juntendo Univ. | Free |
| 2018-02-01 | Shunya Yoneda | Juntendo Univ. | V-V. Nagasaki | Free |
| 2017-04-01 | Naohiro Sugiyama | Kumamoto Ozu HS | Juntendo Univ. | Free |
| 2016-04-01 | Reo Hatate | Shizugaku HS | Juntendo Univ. | Free |