In 2013, $1.6 billion in funding was allocated to the Indigenous sector.
The Labor Government said the money would be used to extend employment programs, fund community and legal services, and improve services in remote communities.
The Prime Minister's Indigenous Advisory Council has been discussing potential budget cuts in recent meetings.
Head of the Council, Warren Mundine said spending on education and employment needs to be prioritised.
Professor John Altman from Australia’s National University said the government should focus to improve the welfare of Indigenous Australians.
“Some of the bureaucratic processes are very inefficient so we've got no idea what proportion of the Indigenous spend is actually getting to Indigenous people in need," he said.
"What we do know is that there is a very cumbersome machinery soaking up a lot of the funding,” said Mr Altman.
The budget will be handed down during the month of May.