The Queensland Government has defended giving almost $3.5 million to the controversial Great Barrier Reef Foundation.

In May, Queensland Environment Minister Leeanne Enoch slammed the Federal Government's decision to hand over nearly half a billion dollars to the foundation, despite her government giving a large sum to the same organisation.

Minister Enoch has highlighted that the criticism of the federal government did not stem from the organisation itself, but the way that the funds were allocated without tender, consultation or discussion.