On 15 March 2006, the Trial Chamber of the International Criminal Tribunal for the former Yugoslavia (ICTY) convicted Amir Kubura of plunder of public or private property (violations of laws or customs of war) and sentenced him to two and a half years in prison. Kubura appealed the Trial Chamber's decision. On 11 April 2006, Kubura was granted early release. On 22 April 2008, the Appeals Chamber granted Kubura's appeal in part, reducing his sentence to two years of imprisonment.
Kubura was Chief of Staff of the 7th Muslim Mountain Brigade of the Army of Bosnia and Herzegovina (ABiH) 3rd Corps. In July 1993, Kubara was named Commander of the ABiH 3rd Corps 7th Muslim Mountain Brigade. He was convicted along with Enver Hadžihasanović for failing to take necessary and reasonable measures to prevent or punish several crimes committed by forces under their command in central Bosnia and Herzegovina in 1993 and the beginning of 1994.