| 25. Round | 12/03/2016 | FK Kamaz | - | SKA-Energiya Khabarovsk | 0:2 | ||||
| 28. Round | 27/03/2016 | SKA-Energiya Khabarovsk | - | FK Radian-Baikal Irkutsk | 0:0 |  |
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| 29. Round | 03/04/2016 | Zenit St. Petersburg 2 | - | SKA-Energiya Khabarovsk | 0:0 | ||||
| 30. Round | 07/04/2016 | SKA-Energiya Khabarovsk | - | Arsenal Tula | 0:1 | ||||
| 31. Round | 11/04/2016 | FK Tosno | - | SKA-Energiya Khabarovsk | 3:2 | ||||
| 32. Round | 18/04/2016 | SKA-Energiya Khabarovsk | - | FK Tom Tomsk | 1:0 | ||||
| 33. Round | 25/04/2016 | Gazovik Orenburg | - | SKA-Energiya Khabarovsk | 0:0 | ||||
| 34. Round | 02/05/2016 | SKA-Energiya Khabarovsk | - | Shinnik Yaroslavl | 2:2 | ||||
| 36. Round | 10/05/2016 | SKA-Energiya Khabarovsk | - | Enisey Krasnoyarsk | 0:2 |
Georgia