Bogdanović played for the Croatian Under-16 national team in 2005, the Under-18 team in 2006 and 2007, and the Under-20 team in 2009. In 2010, he joined the senior Croatian national team for the 2010 FIBA World Championship. In July 2012, the Croatian national team's head coach, Jasmin Repeša, kicked Bogdanović off the team for disciplinary reasons.