Born in Yaoundé, Cameroon, Aboubakar began his career with Cotonsport Garoua. In the 2009–10 season, he was promoted to the club’s senior team in the Elite One league. On 26 May 2010, Aboubakar signed with Valenciennes FC in France. He was assigned the number 9 shirt and made his debut in the club’s opening league match of the season against Nice appearing as a substitute. He scored his first goal and hat-trick against Boulogne in Coupe de la Ligue. In 2009 Aboubakar scored 2 goals in the Final of the U-18 World Cup with Cameroon.
Lorient
Aboubakar signed for Lorient on a free transfer on 1 July 2013.
Porto
Signed for Porto on 24 August 2014, signing a four-year contract for a fee of €3m, equivalent to 30% of his economic rights. He scored a late equalising goal in the Champions League on 10 December 2014 in a 1–1 draw with Shakhtar Donetsk.
Beşiktaş (loan)
On 27 August 2016, Super Lig club Beşiktaş signed him on a season-long loan.
