Shopify Integration

Shopify accounting software, built for UK MTD VAT

Every Shopify order becomes a VAT-compliant invoice in AccLedger automatically. Inventory updates in real time with AVCO costing, payouts reconcile against your bank, and your VAT return files straight to HMRC — without leaving the app.

Connect your Shopify storeSee pricing

90-day free trial · No credit card required · HMRC-recognised MTD software

Auto VAT-compliant invoices

Every paid Shopify order generates a fully formatted invoice with the correct UK or EU VAT rate applied — no manual entry, no exports, no spreadsheets.

Real-time inventory & AVCO

Stock levels move with every sale, refund, and goods receipt. AVCO (average cost) valuation keeps your balance sheet and gross margin reports accurate without an extra app.

Payout reconciliation

Shopify Payments payouts are matched against your bank feed automatically. You always know what has cleared, what is pending, and where the fees went.

EU VAT OSS, generated for you

Selling into the EU? AccLedger compiles your One Stop Shop VAT report from Shopify order data, ready to file — no third-party tool required.

Gross margin & stock valuation

Live dashboards show your real profit per product line and the total value of stock on hand, built from your Shopify and inventory data in real time.

HMRC MTD VAT in one click

When the quarter closes, AccLedger calculates your VAT return from your Shopify invoices and submits it directly to HMRC. No bridging software, no re-keying.

Connect your Shopify store in under two minutes

OAuth handshake, no API keys to copy. AccLedger imports your product catalogue, historical orders, customers, and tax settings on the first sync, then keeps everything live with webhooks.

  • OAuth connection — no developer setup required
  • Imports historical orders, customers, and product catalogue
  • Webhook-driven so new orders, refunds, and product changes sync in real time
  • Multi-currency aware — captures the order currency and the GBP-converted value
AccLedger Shopify connection screen showing live order sync

Every order, the right VAT treatment

AccLedger applies the correct VAT rate per line item: standard, reduced, zero-rated, exempt, EU OSS, or out-of-scope. Refunds reverse the original rate cleanly. Gift cards are treated as non-taxable until redeemed.

  • Standard, reduced, zero-rated and exempt UK rates handled automatically
  • EU OSS rates applied based on shipping country and threshold
  • Refunds and partial refunds reverse the correct VAT amount
  • Gift cards excluded from VAT until redeemed (HMRC-aligned treatment)

Inventory & AVCO costing — included, not an add-on

Most accounting apps make you buy a separate stock app. AccLedger ships real-time inventory with AVCO valuation as standard, so your balance sheet, P&L, and margin reports always tell the truth.

  • Real-time stock levels per product and variant
  • AVCO (average cost) valuation updates with every goods receipt
  • Reorder point alerts before you stock out
  • Stock movement history with full audit trail
Inventory management dashboard with AVCO valuation

Purchase orders & 3-way match for suppliers

Raise a PO to your supplier, record the goods receipt when it arrives, and reconcile the supplier invoice. A simplified SAP MM-style 3-way match, built for small businesses, keeps your cost of sales accurate.

  • Issue purchase orders directly to suppliers
  • Record goods receipts (GRN) on delivery
  • Match supplier invoices against PO and GRN — flag discrepancies
  • Cost of sales updates automatically as stock moves

How AccLedger compares

CapabilityAccLedgerOther Shopify accounting apps
Auto VAT-compliant invoice from every orderOrder summary only
Inventory with AVCO valuation includedAdd-on or separate app
Purchase orders & goods receipts
EU VAT OSS report generated for youManual or third-party tool
Submit MTD VAT to HMRC in the same appSeparate workflow / bridge tool
Payout reconciliation against bankOften manual
Multi-currency order captureSometimes
90-day free trial, no cardTypically 14–30 days

Frequently asked questions

Does AccLedger work with Shopify Plus?
Yes. AccLedger connects via the standard Shopify OAuth flow and works identically with Shopify, Shopify Advanced, and Shopify Plus stores. High-volume Plus merchants benefit from the same real-time webhook sync and AVCO inventory engine.
How are refunds and partial refunds handled?
When a refund is issued in Shopify, AccLedger generates a credit note that reverses the original VAT amount on a per-line-item basis. Partial refunds reduce the VAT proportionally. Both flow through to your VAT return automatically.
What about Shopify Payments payouts?
AccLedger pulls the Shopify Payments payout schedule and matches each payout against the deposit on your bank feed. Transaction fees are categorised to a Shopify Fees expense account, so your gross sales and net deposits both reconcile cleanly.
Can I file my MTD VAT return directly from AccLedger?
Yes. AccLedger is HMRC-recognised MTD VAT software. When your VAT quarter closes, AccLedger calculates the nine VAT boxes from your Shopify invoices and other transactions, lets you review them, and submits directly to HMRC in one click.
How does AccLedger handle EU VAT OSS for Shopify sellers?
If you ship to the EU and use the One Stop Shop scheme, AccLedger compiles your OSS return automatically from Shopify order data — split by destination country and VAT rate. You review the figures and file with HMRC.
Do I need a separate inventory app?
No. AccLedger includes real-time inventory tracking with AVCO costing as standard. You can record stock movements, set reorder points, raise purchase orders, and run stock valuation reports without a third-party app.
How long does setup take?
The Shopify OAuth connection takes under two minutes. Importing historical orders depends on volume — most stores under 5,000 historical orders complete the initial sync in under fifteen minutes.
What if I sell on Shopify and elsewhere?
AccLedger is your accounting backbone, not just a Shopify add-on. You can record sales from any channel — invoices, EPOS, marketplaces, manual entries — and they all flow into the same VAT return and reports.

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Plug AccLedger into your Shopify store today

Set up takes under two minutes. Try the full platform free for 90 days — no credit card, no commitment.

Connect your Shopify storeSee pricing

90-day free trial · No credit card required · HMRC-recognised MTD software