 |
 |
| 1. Division | 20.03.2016 | FK Tom Tomsk | - | Shinnik Yaroslavl | 1:1 | 2.500 |
| 1. Division | 03.04.2016 | FK Tom Tomsk | - | Enisey Krasnoyarsk | 2:1 | 3.000 |
| 1. Division | 11.04.2016 | FK Tom Tomsk | - | Luch-Energiya Vladivostok | 0:2 | 1.800 |
| 1. Division | 25.04.2016 | FK Tom Tomsk | - | Sokol Saratov | 2:1 | 2.000 |
| 1. Division | 06.05.2016 | FK Tom Tomsk | - | Sibir Novosibirsk | 1:0 | 3.300 |
| 1. Division | 15.05.2016 | FK Tom Tomsk | - | FK Kamaz | 2:0 | 2.050 |
| Relegation | 27.05.2016 | FK Tom Tomsk | - | Kuban Krasnodar (1928-2018) | 2:0 | 9.500 |
| Premier Liga | 14.08.2016 | FK Tom Tomsk | - | FK Ufa | 1:0 | 6.873 |
| Premier Liga | 27.08.2016 | FK Tom Tomsk | - | CSKA Moskva | 0:1 | 8.250 |
| Premier Liga | 17.09.2016 | FK Tom Tomsk | - | Arsenal Tula | 1:0 | 4.250 |
| Premier Liga | 01.10.2016 | FK Tom Tomsk | - | FK Ural | 1:1 | 2.950 |
| Premier Liga | 22.10.2016 | FK Tom Tomsk | - | Anzhi Makhachkala | 0:3 | 2.100 |
| Premier Liga | 05.11.2016 | FK Tom Tomsk | - | Spartak Moskva | 0:1 | 5.400 |
Russie