The Sweden skipper had a troublesome relationship with the successful trainer during his spell at Camp Nou, and recently hit out at Guardiola in his autobiography that was published in 2011.
Nevertheless, Ibrahimovic did not let his previous conflicts affect his selection and gave his first vote to the Barcelona coach.
Guardiola beat the likes of Real Madrid's Jose Mourinho and Manchester United manager Alex Ferguson to win the prestigious award. Last year's edition of the award went to Mourinho.
Meanwhile, Ibrahimovic voted for former team-mate Lionel Messi as his player of the year, with Manchester United's Wayne Rooney as his number two, and Barcelona's Andres Iniesta in third position.
Starting in November and continuing through January, Goal.com is publishing exclusive extracts from Graham Hunter's highly-anticipated new book, 'Barca: The Making of the Greatest Team in the World'. Last Friday's extract took a closer look at the most influential figure in the club's history: Johan Cruyff: Don't miss it!