Shopify Xero Integration: Automated, Audit-Ready Books

How to connect Xero to Shopify with Synder

Connect • Shopify

Connected

Store

yourstore.myshopify.com

Xero organization

Connected

Payment gateways

PayPal, Stripe

Connect

Connect your Shopify store and Xero organization to Synder through the Shopify and Xero APIs, then add other payment gateways such as PayPal or Stripe. You don't need CSV exports, Zapier flows or a developer.

Account mapping • Xero

Sales

Shopify sales

Sales tax

Sales tax payable

Processing fees

Merchant fees

Smart Rules · every future sync

Customize

Per Transaction mode posts each order, matches its tax to Xero tax rates, and uses Smart Rules for accounts and tracking categories. Summary Sync posts daily or monthly summaries using Synder's suggested mapping.

Shopify clearing account

$0.00

Payout booked

$5,563.63

Deposit to Checking

−$5,563.63

Bank deposit

$5,563.63

Matched to bank

Reconcile

Synder's Transaction Reconciliation compares synced records with Shopify's own data, pulled automatically, and flags anything that doesn't match, so you review only those transactions. Balance Reconciliation then confirms that your Shopify clearing account balance adds up.

What you get with Synder's Shopify Xero integration

Shopify → Xero

Synder syncs from Shopify to Xero:

Orders and invoices
Synced
Payouts and deposits
Synced
Processing fees, including currency conversion
Synced
Refunds and chargebacks
Synced
Sales tax, VAT and GST
Synced
Discounts and shipping
Synced
Products, inventory and COGS
Synced
Customers as Xero contacts
Synced
Multi-currency amounts
Synced
Historical transactions
Synced

10 of 10 synced

Shopify → Xero

Synder posts each Shopify order to Xero on its own, or as part of one summary per day or month.

Per Transaction mode records every Shopify order as its own Xero sale, with the contact, line items, tax, shipping and discounts, so you can trace each order to Xero. Summary Sync mode groups each connected account's orders into one daily or monthly summary, so Xero gets the same number of summaries no matter how many orders you process.

Synder syncs Shopify to Xero alongside 30+ other sales and payment platforms, such as Amazon, Etsy, TikTok Shop, eBay, WooCommerce, Stripe and PayPal, all into one Xero file.

Each connected account's sales, fees and refunds stay separate in Xero, so you can trace every channel to its own payouts. To report revenue by channel, map each platform to its own sales account or tag it with a Xero tracking category. Your Profit and Loss still shows the combined total.

Synder records Shopify processing fees separately from sales and posts them to the expense accounts you choose, so your margin includes the real cost of every sale. Because each platform's fees post separately, you can compare fee costs between Shopify Payments, PayPal and Stripe.

Synder records every Shopify refund separately from sales, so revenue in Xero reflects your returns. The refund's sales tax is reversed too, once Shopify tax is matched to Xero tax rates.

Synder posts Shopify sales tax, VAT and GST to Xero separately from revenue and doesn't calculate tax itself. Synder works with whatever rates your Xero organization uses, such as US state sales tax, UK or EU VAT, or Australian and New Zealand GST. Once Shopify tax is matched to those Xero tax rates, it shows up in Xero's tax reports.

Synder imports past Shopify orders, refunds, payouts and fees into Xero from a start date you choose. Use it to start a clean Xero file, catch up on a backlog, or move over from spreadsheets or another sync app without losing past periods.

Synder's Smart Rules engine runs your own automation rules in Per Transaction mode, while Summary Sync mode uses Groups. You set a condition once, and Synder applies it to every matching record as it syncs to Xero. A rule can change the account, tax rate, item, description or tracking category on an invoice or bill, either on every line or only on the line that matches. You can also describe the rule you need and let the Smart Rules AI Builder create a draft for you to review.

Synder posts foreign-currency Shopify orders to Xero in the original currency in both sync modes, with a clearing account mapped for each currency. Xero then converts each transaction to your home currency and records any currency gains or losses. Turn on multicurrency in Xero first, which is included on Xero's higher-tier plans, then turn it on in Synder.

Shopify Xero integration pricing

save 20%

30+ platforms

15-day free trial

Basic

Basic sync tools included

$65$52

/mo

Billed monthlyBilled yearly

Everything included:

Up to 500 sales transactions/mo
1 user
Smart Rules available as a paid add-on
Email support / regular tech support lane

Book a demo

Essential

Ideal for expanding businesses

from

$129$103

/mo

Billed monthlyBilled yearly

Everything included:

Up to 3,000 sales transactions/mo
1 user
Smart Rules available as a paid add-on
Email support / regular tech support lane

Book a demo

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Why should you choose Synder?

Compliance-first security

Synder is SOC 2 Type 2 certified, GDPR and CCPA compliant, and HIPAA-ready. It encrypts data at rest and in transit, and your auditors can request its SOC 2 report through the Synder Trust Center.

Reliable support

Synder's support team specializes in ecommerce accounting and helps by email, chat, video call or screen share, depending on your plan.

Detailed reporting

Synder breaks down revenue by product, location, payment method or date, from monthly snapshots to year-end reports.

Flexible customization

Set up each transaction the way your books need it: rename line items, assign accounts and tracking categories, and choose Xero tax rates. In Per Transaction mode, Smart Rules then apply your choices to every matching order automatically.

Synder vs the Shopify integration by Xero

Shopify integration by Xero

Sync options

Per Transaction, or daily or monthly summaries

Per-sale transactions or a daily summary

Sales channels

Shopify plus 30+ other platforms in one Xero file

Shopify online store and POS only

Processing fees

Recorded separately and posted to the expense accounts you choose

Shopify Payments and PayPal fees handled in payout matching

Sales tax, VAT and GST

Matched to your Xero tax rates, including US state sales tax

Partial

Tax mapping to Xero rates, but Xero’s US page says US sales tax isn’t accounted for

Multi-currency

Original currency, with a clearing account per currency

Not available

Automation rules

Smart Rules for accounts, tax rates and tracking categories, plus Groups

Partial

Tax mapping options

Historical data

From a start date you choose

Partial

Up to 90 days

FAQ

Getting started

The best way to integrate Shopify and Xero is to connect both to Synder, which posts orders, fees, refunds and payouts to Xero automatically. Setup takes three steps: connect Shopify, Xero and any other payment gateways, choose a sync mode and settings, then make sure payout syncing is on. Unlike CSV exports or Zapier flows, Synder records each payout line by line. You can test it with a 15-day free trial.

Synder reconciles Shopify payouts in Xero by recording their sales, fees and refunds through a clearing account, so each deposit can be matched to your Xero bank feed. Transaction Reconciliation then compares synced records with Shopify's own data and flags anything that doesn't match. Balance Reconciliation confirms that the clearing account balance adds up.

Your Shopify store should use Per Transaction mode if you need every order as its own Xero record, and Summary Sync mode if you prefer one summary per day or month. Per Transaction mode keeps each order's contact, line items and tax, and supports Smart Rules. Summary Sync mode keeps Xero lighter, because the number of summaries follows the calendar instead of your order count.

Synder's Shopify Xero integration starts at $65 a month on the Basic plan, or $52 a month billed annually. Essential starts at $129 a month, Pro at $299 and Pro Max at $599. The price depends on how many transactions you sync each month, and processing fees don't count toward that limit. Synder offers a 15-day free trial, and accounting firms get volume discounts through the Synder Partner Program.

Products, tax & currency

Synder supports multi-currency Shopify stores in Xero by posting each order in its original currency in both sync modes, with a separate clearing account for each currency. Xero then converts each transaction at its own exchange rates and records any gains or losses. It's available on Xero's higher-tier plans and works with every currency Xero supports. Turn on multicurrency in Xero first, then in Synder.

Synder records Shopify inventory movements and cost of goods sold in Xero when it syncs orders individually and you turn on Inventory Management. Synder creates inventory products in Xero and posts each sale against the inventory asset, cost of goods sold and inventory adjustment accounts you choose. By default, each order line keeps its product and SKU.

Synder creates a Shopify product in Xero when it syncs orders individually and finds no matching Xero item, if you turn that option on. Synder first searches by SKU or by name, depending on the priority you set, and can otherwise stop the sync instead. A product mapping table covers products with different names in Shopify and Xero, and you can post sales under one common product name.

Synder handles Shopify sales tax in Xero by posting it separately from revenue and can apply the tax rates already set up in Xero. Synder doesn't calculate tax itself, so add your US sales tax, VAT or GST rates in Xero before syncing. Once matched to Xero tax rates, sales tax and refund tax show up in Xero's tax reports.

Stores, history & comparison

Synder differs from the Shopify integration by Xero in three ways. Synder syncs 30+ other sales and payment platforms into the same Xero file, imports historical data from a start date you choose, and adds Smart Rules in Per Transaction mode. Xero's integration covers Shopify's online store and POS, with up to 90 days of history. Both offer per-order syncing or daily summaries.

Synder syncs multiple Shopify stores into one Xero file, with each store connected as its own integration and its own settings. Choose separate sales and clearing accounts for each store in its settings, so every store's revenue and payouts stay traceable in Xero.

Synder imports historical Shopify orders, refunds and payouts into Xero from a start date you choose. Use it to catch up on a backlog or move over from spreadsheets or another app. How far back you can go depends on the history Shopify provides, and imports count toward your plan's sync limit.