Shopify and Xero after the July 2026 switch: what the new integration does, and how to check it
Updated 2026-10-15 ยท by Hieu Tran, written with AI agents and checked against the sources below
Xero replaced its Shopify integration in 2026. In replies to reviews on its App Store listing, Xero said the old integration would stop working on 8 July 2026. The new one is free on all Xero plans, and Xero partnered with Amaka to help merchants set it up.
It lists orders missing from the books, posted twice, or posted with a different total or tax, plus the income accounts your sales went to. Files stay in your browser. It's a check, not accounting advice.
What the new integration does
Syncs sales, payouts, fees and taxes from Shopify into Xero, from the Online Store and Shopify POS.
Posts sales either as a daily summary or as separate per-sale transactions, whichever you pick.
Matches Shopify payouts to your bank account and handles fees, refunds and taxes.
Imports up to 90 days of history.
Can connect several storefronts to one Xero organisation, which the old integration couldn't.
Moving over (Xero's steps)
Connect the new Shopify integration by Xero from the Xero App Store.
Map your accounts and taxes when prompted.
Select Yes when asked to disconnect the old integration.
Check that the history import doesn't overlap what the old integration already posted, or those days will be in Xero twice.
Checking the first months
Per-sale mode: match each Shopify order number to a Xero invoice. List the orders that are missing, appear twice, or have a different total or tax.
Daily summary: you can't match single orders, so compare each day's Shopify sales total with the day's summary in Xero.
Payouts: if you post Shopify sales to a clearing account, each payout should bring it back to zero. A balance left over points to a missing or doubled sale, fee or refund.
Account mapping: a US merchant reported in July 2026 that the new integration broke their chart-of-accounts mapping: sales and taxes no longer went to the accounts set up for the old app. Check which accounts the first month's sales and taxes went to.
A UK reviewer reported duplicated invoices and payments that didn't sync, later sorted out with support. Check before you file a VAT return.
It lists orders missing from the books, posted twice, or posted with a different total or tax, plus the income accounts your sales went to. Files stay in your browser. It's a check, not accounting advice.
What did you have to fix in Xero after moving to the new Shopify integration?
We're researching this problem and read every answer. Tell us what happened (4 short questions, no sign-up; AI tools help us read the answers).