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Bookkeeping guide · Updated October 12, 2026

Bookkeeping for Medical Practices and Clinics

A medical practice has two money systems: the practice management or billing software, and the accounting books. The challenge is keeping them tied together without exposing patient information in your accounting file.

Quick answer. A medical practice charges a fee but insurers pay contracted rates, and the difference is a contractual adjustment, not a loss or bad debt. Record revenue at the amount you expect to collect, and keep patient details out of the accounting file.

Want this handled for you?

Monthly bookkeeping, cleanup and year-end close for small businesses. Start with a free health check of your books.

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Related: Owner contribution or loan · Closing entries and retained earnings · Void vs delete a transaction

Free tools: Credit card fee calculator · How many sales do I need to break even?

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Keeping your own books? Tallyfinch does invoices, bank import and reports on your computer. See Tallyfinch

New Jersey deadlines and rule changes, by email

A short email when a deadline is coming up, a rule changes or we add a free tool. A few a month at most, and you can unsubscribe any time.

Do it yourself

Medical and Dental Practice Bookkeeping Kit

Tie patient payments, insurance remittances and card deposits back to the billing system every month, without putting patient information in the books.

See what's inside ($29) Free sample14-day full refund

Tallyfinch

Books you keep on your own computer

Tallyfinch does invoices, bills, bank import, reconciliation and the main reports, in a file you own. $99 once, then $5 a month for updates; the app keeps working if you stop the plan. It does not do payroll or sales tax filing. The free download records up to 60 entries.

See Tallyfinch Download it free Compare the three apps

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