First Nations health services will have certainty to plan for the medium-term future, as the federal government announced four-year rolling funding agreements from July 1, along with a $300 million funding boost.

Aboriginal Community Controlled Health Organisations (ACCHOs) play an integral role in First Nations health and self-determination, delivering holistic, comprehensive, and culturally appropriate health care to the community which controls it.

Last year, 120 ACCHOs delivered health care to more than 410,000 people in First Nations communities across the country.

National Aboriginal Community Controlled Health Organisation (NACCHO) acting chief executive Dawn Casey said the new rolling arrangements and increased funding would provide "crucial financial stability" for the sector.

"This recognition further reflects the Sector's longstanding provision of healthcare across diverse settings, from very remote to urban areas," Dr Casey said.

Indigenous Minister Linda Burney said the government knows "communities have the solutions to so many challenges that face us".

"This new funding agreement will give ACCHOs the certainty they need to plan for the future, and work towards long term solutions," she said.

Assistant Minister for Indigenous Australians, Malarndirri McCarthy told ABC Darwin ACCHOs have always been focussed on self-determination in working towards better life expectancy and health outcomes for First Nations people, noting the rolling guarantee would offer job security for ACCHOs to help retain staff long-term.

"They are a place that's culturally safe for First Nations people to go to," the Yanyuwa senator said.

"They are also fluent in languages; for example, in Miwatj with the Yolngu language in central Australia, there are certainly languages there that need to be spoken and interpreted. So, it is a place that First Nations people feel they can go to talk about really important health issues."

She highlighted the role ACCHOs play in education, noting it is a key component of chronic disease prevention.

"ACCHOs…conduct incredibly important educational kits, encouraging people [things] as simple as washing your hands, making sure that you're washing your sheets, you're cleaning your towels, making sure that you get your hearing checked," Senator McCarthy said.

"ACCHOs…run important educational campaigns and our investment in them is absolutely crucial across Australia."

In reference to the NT - where more than 30 per cent of residents identify as First Nations - Senator McCarthy said places such as Ampilatwatja which will see its funding increase by five per cent, while there will also be increases for Anyinginyi in Tennant Creek, Katherine West, the Laynhapuy Homelands in northeast Arnhem Land and the Marthakal Homelands Aboriginal Corporation.

"One thing the Health Minister has identified, through the conversations with Closing the Gap and NACCHO is that it is the remote and regional parts of the country where the health services do need a large injection of resources," she said.

"We know we have to be at the front end of this to support the health and wellbeing of Territorians in our remote and regional areas of the Territory, and I do see this as crucial to that.

"This is also about reducing the pressures on the hospitals, both in Alice and in Darwin, so we are continuing to do that."