The 2016 FC Kairat season was the sixth successive season that the club played in the Kazakhstan Premier League, the highest tier of association football in Kazakhstan, since their promotion back to the top flight in 2009. As reigning Kazakhstan Cup champions, Kairat participated in the Kazakhstan Super Cup and the Europa League.
Aleksandr Borodyuk replaced VladimÃÂr Weiss as the club's manager at the start of the season, but resigned as manager on 5 April following a poor start to the season. On 7 April, Kakhaber Tskhadadze was announced as the club's new manager.
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Trialists:
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|- |colspan="14"|Players away from Kairat on loan:
|- |colspan="14"|Players who left Kairat during the season: