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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

Advice on NDIS pricing or rules, and your accountant's year-end work. We keep the books your accountant works from.

How NDIS provider bookkeeping works

The same steps each month, built around how your payments arrive.

  1. 01

    Set up

    We look at how you invoice and claim, and agree how payments will be matched to your existing records.

  2. 02

    Match

    Each month we match payments to the invoices and claims they cover, and reconcile your accounts.

  3. 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.

A typical month of NDIS provider bookkeeping, step by step
  1. 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.

  2. You

    Forward the paperwork

    You send us remittances, supplier bills and subcontractor invoices as they arrive.

  3. Book Keeping Pros

    Match payments

    We match each deposit to the requests or invoices it pays, using the remittance and the bank details.

  4. Book Keeping Pros

    Record costs

    We enter supplier and subcontractor bills and match them to the payments you make.

  5. Book Keeping Pros

    Reconcile

    We reconcile each bank and card account against its statement and note anything we can't place.

  6. You

    Answer questions

    You tell us what any unplaced deposit or payment was for.

  7. Book Keeping Pros

    Send the reports

    We send the profit and loss, the balance sheet and the list of requests and invoices still unpaid.

  8. 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 an NDIS provider sends us, and when
What we needWhyWhen
Access to your accounting softwarePayments, bills and reports are kept in your own Xero, MYOB or QuickBooks fileBefore the first month starts
Your participants, and who manages each one's fundingSo each invoice and request is filed under the right payerBefore the first month starts, then whenever an arrangement changes
Your record of payment requests made to the NDIAIf a deposit covers more than one request, your record shows how to split itEach month
Remittances from plan managers and other payersThey show which invoices a payment coversAs each one arrives
Supplier bills and subcontractor invoicesTo record what it costs to deliver your supportsAs they arrive
Statements for each bank and card accountTo reconcile the books against the bank's own recordEach month, once the statement is issued
Answers about deposits we can't placeSo a payment is recorded against the right participant, not a guessWhen we ask
Your decision on each short or rejected paymentSo the books show what you've chosen to do about itOnce 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.

How each funding route shows up in a provider's books
Who manages the fundingWhat you sendWhat reaches your bankWhat it's matched to
The NDIAA claim for payment to the NDIAA deposit from the NDIAYour record of the requests made
A plan managerAn invoice to the plan managerA payment from the plan manager, with any remittance it sendsThe invoices on the remittance
The participantAn invoice to the participantA payment from the participantThe 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 once income is tracked
What the books can showWhat it tells you
Income by participantWhat each participant's supports brought in for the month and the year to date
Income by funding routeHow much came through the NDIA, through plan managers and from self-managed participants
Income by kind of supportWhich supports bring in the most, set against what they cost to deliver
Unpaid by payerWhat 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?
No. A plan manager manages a participant's funding and, under the NDIS Act, makes the claims for the supports it manages. NDIS provider bookkeeping keeps the books of the business that delivers the supports, including matching what plan managers pay you to your invoices.
One payment covers several invoices. Can you match it?
Yes. We use the remittance that comes with the payment to match each part to the right invoice or claim, and list anything that doesn't add up.
Which software do you use for NDIS providers?
Xero, MYOB and QuickBooks Online. If you're not using one yet, our help covers getting access to the software, connecting supported bank feeds and training you on its everyday bookkeeping tasks.
Do you advise on NDIS pricing?
No. We look after your bookkeeping, not NDIS pricing or rules. We record the amounts on your invoices and claims as you've raised them.
What if our books are behind?
We catch them up first, starting with the oldest month, then keep them current each month.

Related services

Sources

  1. 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.

  2. 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.