NDIS provider bookkeeping
Bookkeeping for businesses that deliver NDIS supports. We match each payment to the invoices or claims it covers, reconcile your accounts and keep your books current.
- Who it's for
- NDIS providers
- The work
- Payments matched to claims
- The software
- Xero, MYOB or QuickBooks
What's included
General bookkeeping, set up around the way NDIS providers are paid.
- Each payment matched to the invoices or claims it covers
- Remittances checked against what you invoiced or claimed
- A list of invoices and claims that are still unpaid
- Income split by how each participant's funding is managed, if you want it
- Bank and card accounts reconciled each month
- Supplier bills entered and matched to payments
- A profit and loss report and a balance sheet each month
Not included
How NDIS provider bookkeeping works
The same steps each month, built around how your payments arrive.
- 01
Set up
We look at how you invoice and claim, and agree how payments will be matched to your existing records.
- 02
Match
Each month we match payments to the invoices and claims they cover, and reconcile your accounts.
- 03
Report
You get your monthly reports, with a list of anything still waiting to be paid.
Who does what in a provider's month
Billing for supports and following up unpaid amounts stay with you. Matching, reconciling and reporting are ours.
You
Bill for supports
You raise invoices to plan managers and self-managed participants, and make claims for payment to the NDIA for agency-managed participants.
You
Forward the paperwork
You send us remittances, supplier bills and subcontractor invoices as they arrive.
Book Keeping Pros
Match payments
We match each deposit to the requests or invoices it pays, using the remittance and the bank details.
Book Keeping Pros
Record costs
We enter supplier and subcontractor bills and match them to the payments you make.
Book Keeping Pros
Reconcile
We reconcile each bank and card account against its statement and note anything we can't place.
You
Answer questions
You tell us what any unplaced deposit or payment was for.
Book Keeping Pros
Send the reports
We send the profit and loss, the balance sheet and the list of requests and invoices still unpaid.
You
Follow up
You chase anything unpaid or short-paid with whoever manages that participant's funding.
What we need from you
Most of this is paperwork your business already has. The participant list is needed once, then again when an arrangement changes.
| What we need | Why | When |
|---|---|---|
| Access to your accounting software | Payments, bills and reports are kept in your own Xero, MYOB or QuickBooks file | Before the first month starts |
| Your participants, and who manages each one's funding | So each invoice and request is filed under the right payer | Before the first month starts, then whenever an arrangement changes |
| Your record of payment requests made to the NDIA | If a deposit covers more than one request, your record shows how to split it | Each month |
| Remittances from plan managers and other payers | They show which invoices a payment covers | As each one arrives |
| Supplier bills and subcontractor invoices | To record what it costs to deliver your supports | As they arrive |
| Statements for each bank and card account | To reconcile the books against the bank's own record | Each month, once the statement is issued |
| Answers about deposits we can't place | So a payment is recorded against the right participant, not a guess | When we ask |
| Your decision on each short or rejected payment | So the books show what you've chosen to do about it | Once you've followed it up |
NDIS provider bookkeeping: what you're asking
How money moves through an NDIS provider's books, from billing to the unpaid list.
How does getting paid differ for agency-managed, plan-managed and self-managed participants?
It depends on who manages the funding for each support in a participant's plan. Under section 45A of the NDIS Act, a claim for payment is made by whoever manages that funding, except where the National Disability Insurance Agency (NDIA) manages it. Then the provider that delivers the support makes the claim.
So one provider can be paid by three routes in the same month, and each route leaves a different trail in the books.
| Who manages the funding | What you send | What reaches your bank | What it's matched to |
|---|---|---|---|
| The NDIA | A claim for payment to the NDIA | A deposit from the NDIA | Your record of the requests made |
| A plan manager | An invoice to the plan manager | A payment from the plan manager, with any remittance it sends | The invoices on the remittance |
| The participant | An invoice to the participant | A payment from the participant | The invoice it pays, found by its reference or amount |
In your accounting software, the NDIA, each plan manager and each self-managed participant you bill can be set up as a separate customer. What each one owes your business then shows on its own, rather than inside one total.
A participant's funding arrangement can change. Keeping each payer apart in the books shows which one each open invoice was sent to.
Can income be tracked by participant and by support?
Yes. At the start, we agree how participants appear in your books, so each invoice and payment request carries the participant it's for, whoever pays it. Coding each invoice this way lets the books show income by participant, by funding route and by the kind of support you deliver.
Kinds of support can be kept apart with separate income accounts or with the tracking your software offers. Subcontractor invoices can be tracked the same way, so the cost of delivering a kind of support sits beside the income it brings in. If you run more than one site or team, the same tracking can split income between them.
| What the books can show | What it tells you |
|---|---|
| Income by participant | What each participant's supports brought in for the month and the year to date |
| Income by funding route | How much came through the NDIA, through plan managers and from self-managed participants |
| Income by kind of support | Which supports bring in the most, set against what they cost to deliver |
| Unpaid by payer | What the NDIA, each plan manager and each participant still owes, and for how long |
The tracking depends on consistent billing. Invoices and requests need to name the participant and the support the same way each time. When one doesn't, we check with you before recording it.
What happens in the books when a claim is rejected or paid short?
Each payment request and invoice stays open in your books until it's paid or you decide what happens to it. That's what makes a shortfall visible, rather than lost inside a deposit that looks about right.
- Paid short: the amount that arrived is matched to the request or invoice, and the difference stays open against it, with its reference, on your unpaid list.
- Not paid: the request or invoice stays on the unpaid list and shows its age, so it doesn't drop out of sight as months pass.
- Paid twice, or paid too much: the extra is flagged for you, because it may need to go back to whoever paid it.
- Paid by an unexpected payer, such as a participant paying an invoice you sent to a plan manager: we check with you before it's matched.
Finding out why a claim was rejected or reduced sits with you and whoever manages the funding. Once you know, you decide what happens next: correct and resend the request, bill the right payer, or stop pursuing the difference.
We then record your decision. That might mean a credit note against the original invoice or a corrected invoice. How and when it's recorded is for your accountant to specify, and we follow those instructions.
What do quality audits mean for a registered provider's books?
The NDIS Quality and Safeguards Commission (the NDIS Commission) explains that before a provider becomes registered, it's assessed against the NDIS Practice Standards in an independent quality audit carried out by an approved quality auditor. As a general rule, a verification audit is for low risk, low complexity supports, and a certification audit for higher risk ones. Depending on the supports, an audit can include a review of documents and information about the business.
An audit looks at how a provider meets the Practice Standards, which covers far more than its books. Bookkeeping doesn't prepare a provider for an audit or show that it meets the Standards, and we don't advise on them.
Where the books come in is cost. The NDIS Commission says there is no cost to register with it, but the provider pays the approved quality auditor, and the Commission doesn't set what auditors charge. Auditors' invoices can be recorded so you can see what audits have cost from one registration period to the next.
Your books stay in your own accounting software, with each month reconciled. If anyone asks to see your financial records, you can open the file and show them.
NDIS bookkeeping questions
Is NDIS bookkeeping the same as plan management?
One payment covers several invoices. Can you match it?
Which software do you use for NDIS providers?
Do you advise on NDIS pricing?
What if our books are behind?
Related services
Small business bookkeeping
Your books kept current, every month.
Catch-up bookkeeping
Missing months entered and every account reconciled.
Xero bookkeeping
Your Xero file reconciled and kept current.
Sources
- National Disability Insurance Scheme Act 2013, section 45A
Federal Register of Legislation, Office of Parliamentary Counsel. Compilation No. 28, 1 October 2026, released 1 October 2026. Checked 16 October 2026.
Based on content from the Federal Register of Legislation at 16 October 2026. For the latest information on Australian Government legislation please go to https://www.legislation.gov.au. Licence: CC BY 4.0.
- The quality audit process
NDIS Quality and Safeguards Commission. Current at 15 October 2026, released 15 October 2026. Checked 16 October 2026.
© Commonwealth of Australia Licence: CC BY 4.0.