| Club: | FC Atyrau |
| Season: | 2016 |
| Manager: | Vladimir Nikitenko |
| Chairman: | Zheksenbai Kusainov |
| Stadium: | Munaishy Stadium |
| League: | Kazakhstan Premier League |
| League Result: | 8th |
| Cup1: | Kazakhstan Cup |
| Cup1 Result: | Semifinal vs Kairat |
| League Topscorer: | Volodymyr Arzhanov (8) |
| Season Topscorer: | Volodymyr Arzhanov (9) |
| Prevseason: | 2015 |
| Nextseason: | 2017 |
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The 2016 FC Atyrau season is the 16th successive season that the club will play in the Kazakhstan Premier League, the highest tier of association football in Kazakhstan.
See main article: List of Kazakhstan football transfers winter 2016. In:[2] [3] [4] [5] [6] [7] [8] [9] [10] [11] Out:[12] [13] [14]
See main article: List of Kazakhstan football transfers summer 2016. In:[15] [16] Out:
See main article: 2016 Kazakhstan Premier League.
See main article: 2016 Kazakhstan Cup.
|-|colspan="14"|Players away from Atyrau on loan:|-|colspan="14"|Players who appeared for Atyrau that left during the season:|}
| width=60 | Place | width=60 | Position | width=60 | Nation | width=60 | Number | width=150 | Name | width=120 | Premier League | width=120 | Kazakhstan Cup | width=80 | Total |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | MF |  | 9 | Volodymyr Arzhanov | 8 | 1 | 9 | ||||||||
| 2 | FW |  | 26 | Przemysław Trytko | 7 | 0 | 7 | ||||||||
| 3 | MF | 30 | Alexandru Curtean | 4 | 0 | 4 | |||||||||
| 4 | MF |  | 10 | Pavel Shabalin | 3 | 0 | 3 | ||||||||
| MF | | 11 | Vyacheslav Sharpar | 3 | 0 | 3 | |||||||||
| 6 | DF |  | 21 | Aleksandar Damčevski | 2 | 0 | 2 | ||||||||
| MF | | 19 | Valeri Korobkin | 2 | 0 | 2 | |||||||||
| 8 | MF | | 17 | Ulan Konysbayev | 1 | 0 | 1 | ||||||||
| MF | | 6 | Altynbek Saparov | 1 | 0 | 1 | |||||||||
| FW |  | 13 | Alyaksandr Makas | 1 | 0 | 1 | |||||||||
| MF | | 96 | Maxim Fedin | 1 | 0 | 1 | |||||||||
| MF |  | 7 | Guy Essame | 1 | 0 | 1 | |||||||||
| DF | | 21 | Aleksandar Damčevski | 0 | 1 | 1 | |||||||||
| Own goal | 1 | 0 | 1 | ||||||||||||
| TOTALS | 35 | 2 | 37 | ||||||||||||
| Number | Nation | Position | Name | Premier League | Kazakhstan Cup | Total | ||||
| 2 | | DF | Aldan Baltaev | 0 | 0 | 1 | 0 | 1 | 0 | |
| 5 | | DF | Aleksei Muldarov | 7 | 0 | 1 | 0 | 8 | 0 | |
| 6 | | MF | Altynbek Saparov | 8 | 0 | 1 | 0 | 9 | 0 | |
| 7 | | MF | Guy Essame | 4 | 0 | 2 | 0 | 6 | 0 | |
| 8 | | DF | Valentin Chureyev | 3 | 0 | 0 | 0 | 3 | 0 | |
| 9 | | MF | Volodymyr Arzhanov | 3 | 0 | 0 | 0 | 3 | 0 | |
| 10 | | MF | Pavel Shabalin | 1 | 1 | 0 | 0 | 1 | 1 | |
| 11 | | MF | Vyacheslav Sharpar | 3 | 1 | 0 | 0 | 3 | 1 | |
| 12 | | DF | Ruslan Esatov | 6 | 0 | 0 | 0 | 6 | 0 | |
| 13 | | FW | Alyaksandr Makas | 2 | 0 | 0 | 0 | 2 | 0 | |
| 17 | | MF | Ulan Konysbayev | 1 | 0 | 0 | 0 | 1 | 0 | |
| 19 | | MF | Valeri Korobkin | 7 | 0 | 0 | 0 | 7 | 0 | |
| 26 | | FW | Przemysław Trytko | 3 | 0 | 0 | 0 | 3 | 0 | |
| 28 | | DF | Vladislav Kuzmin | 6 | 1 | 0 | 0 | 6 | 1 | |
| 30 | MF | Alexandru Curtean | 4 | 0 | 1 | 0 | 5 | 0 | ||
| 33 |  | DF | Abdel Lamanje | 1 | 0 | 0 | 0 | 1 | 0 | |
| 35 | | GK | Ramil Nurmukhametov | 0 | 0 | 1 | 0 | 1 | 0 | |
| 96 | | MF | Maxim Fedin | 2 | 0 | 0 | 0 | 2 | 0 | |
| TOTALS | 58 | 3 | 10 | 0 | 68 | 3 | ||||