How the QuickBooks Desktop Integration Works
2. Add ACH Pro to QuickBooks Web Connector
3. Sync vendors, customers and employees
4. Search for QuickBooks Desktop transactions and create ACH files!
Use Cases
Payroll
Send direct deposit payments to employees and contractors
Accounts Payable
Send payments to vendors and pay bills automatically in QuickBooks after the file is created
Customer Billing / Accounts Receivable
Pull funds from your customers electronically and reduce the paperwork and wasted time that comes from applying payments
More Than Vendor Payments
The QuickBooks Desktop integration isn't limited to accounts payable. Because ACH Pro generates ACH files from any QuickBooks transactions, you can also run payroll and employee reimbursements, collect payments from customers, and handle recurring disbursements — all from the vendors, employees, and customers you sync from QuickBooks Desktop. Whatever the payment type, ACH Pro turns your existing QuickBooks data into a compliant NACHA file you send through your own bank.
No Per-Transaction Fees
Because payments run through your existing bank rather than a third-party processor, you avoid the per-payment fees that bill-pay services and payment processors charge. You keep the flat, low ACH cost your bank already offers — which adds up quickly when you're paying dozens or hundreds of vendors a month.
Eliminate Manual Entry and Paper Checks
Stop re-keying payment data into your bank portal and stop printing and mailing checks. ACH Pro pulls the details straight from QuickBooks Desktop, so recipient information and amounts carry over automatically — reducing errors, check-printing costs, and the time your team spends on payments each week.
Frequently Asked Questions
Can I pay vendor bills by ACH directly from QuickBooks Desktop?
Yes. ACH Pro connects to QuickBooks Desktop, lets you select the bills you want to pay, and then generates a NACHA-formatted ACH file you send through your existing bank. Your vendors are paid by ACH and the payments reconcile in QuickBooks.
How do I set up ACH payments in QuickBooks Desktop?
Connect ACH Pro to your QuickBooks Desktop company file using the desktop connector, sync your recipients, then select transactions to generate an ACH file. ACH Pro walks you through each step during setup.
Which versions of QuickBooks Desktop are supported?
ACH Pro supports QuickBooks Desktop Pro, Premier, and Enterprise, version 2019 or later.
Does ACH Pro charge per-transaction fees?
No. ACH Pro charges a flat monthly rate.
Is the QuickBooks Desktop integration free?
The QuickBooks Desktop integration is available on ACH Pro's paid plans, which include a 30-day free trial. QuickBooks Online integration is available on the free Starter plan.