In 2010, he was awarded by the managers of the league teams Austrian Footballer of the Year[4] and the fans voted him "Player of the Year"[5] in the annual award of the newspaper Kronen Zeitung.
In January 2012, Junuzović went to Bundesliga club SV Werder Bremen and played till 2018 for the team. In 2015 Junuzović was voted as "Player of the Season" by Werder's fans.[6] In April 2018, he left Bremen after six and half years at the club.[7] He joined FC Red Bull Salzburg in the Austrian Bundesliga. He played there until 2022 and then his contract was not extended.[8] He ended his career and became assistant coach of FC Liefering.[9]
Junuzović played for Austria at the 2007 FIFA U-20 World Cup.[11] where they reached the fourth place. In March 2006, he made his debut for the Austria national football team in friendly match against Canada. He also played for Austria at the 2016 Euros.[12]
In October 2017, Junuzović retired from the national team.[13]