Owners of privately-operated supported residential facilities (SRFs) say the sector is on the verge of crisis because of uncertainty over future funding.

The homes, which run as businesses, provide accommodation to about 800 vulnerable people across South Australia.

They rely upon a board and care subsidy from the State Government of up to $14.65 per resident per day.

But the advent of the National Disability Insurance Scheme (NDIS) means the future of that subsidy is uncertain, raising the risk that some residents may end up homeless.

SRF Association president Kris Moroney said a meeting with the State Government this week did not instil confidence or lead to future guarantees.

"They did re-state their position that the funding would remain in place... up until June next year," Ms Moroney said.

"But we've had no guarantees moving forward beyond that.

"We feel our core issue wasn't being heard and that is, as business owners, it's not clear how NDIS is going to fill that board and care subsidy and that leaves our residents at huge risk."

Government denies pressuring owner to re-sign

Ms Moroney said she was asked to provide a list of SRFs in imminent danger of closing.

One of the facilities on the list belongs to Tom Riley who houses 16 people, including one resident since 1972.

Mr Riley has three weeks to decide whether to re-sign a five-year lease on his business.

He said a phone call he received on Wednesday from the Department of Communities and Social Inclusion (DCSI) made him uncomfortable.

"In summary it was, 'oh well, if you don't sign a new lease we are going to move all the people out of your facility'," Mr Riley said.

"I just sort of threw my hands up and said, 'oh no, I can't walk away financially and I can't walk away emotionally or morally'. This business is really my life and it's really [the residents'] lives too."

Kris Moroney (right) said operators and residents remain in the dark. ( ABC News: Simon Royal )

Ms Moroney said she was disappointed and upset by the phone call but, in a statement to the ABC, the Government dismissed Mr Riley's interpretation of it.

"The State Government strongly rejects any suggestion Mr Riley was pressured into re-signing his lease. This is entirely a decision for Mr Riley as a private operator," it said.

"Obviously, if Mr Riley chooses not to continue to operate... provisions will need to be made to house his existing 16 residents and the DCSI will assist in this process."

Opposition accuses Government of 'penny-pinching'

At the heart of the confusion, though, is whether all the current SRF residents will qualify for NDIS packages - something that is unclear to both operators and residents.

The NDIS said accommodation services which fall outside of it remain a state responsibility, but the State Government appears to be putting the future of the services in the lap of the NDIS.

"Once a person receives an NDIS support package the subsidy will no longer be paid for that person," it said.

"The rollout of the NDIS will see $1.5 billion spent annually in South Australia on disability services, expanding the sector and creating 6,000 new jobs."

Opposition spokeswoman Michelle Lensink said the Government's position does not address the worries of the SRF Association.

"There's huge concern that a lot of businesses are going to fall over because they are not ready, so you've got to question what the State Government has been doing for the last four years," Ms Lensink said.

"The SRF sector has been asking for state help to fit into the NDIS model and it's getting to crunch time now, and I've got a strong suspicion what the State Government is doing is penny-pinching.

"It doesn't make sense to me not to provider some leadership so that people can keep the same roof over their head."

Social Housing Minister Zoe Bettison said she had already started meeting with operators.

"How can I leave operators in the dark when I met with them on Monday?" Ms Bettison said.

"I committed very succinctly with them that we would look at how they could develop their businesses in this new environment and I also committed to them to meeting with them regularly."