The Pikangikum First Nation accused Robert Nault of "misfeasance" for imposing third-party management on the reserve more than a decade ago.
The band also claimed Nault withheld millions of dollars for infrastructure projects until it dropped its legal challenge of the federal government's decision to appoint a third-party manager.
The trial judge dismissed the case against Nault, noting the third-party manager was brought in by bureaucrats against the then-minister's wishes.
An appeals court also sided with Nault, who was Indian Affairs minister between 1999 and 2003.
As is its usual practice, the Supreme Court did not release reasons for its decisions.
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