Zoho Books and WooCommerce with VeriFactu: 2025 guide to invoicing your online store

If you sell online and invoice as a freelancer or SME in Spain, connecting Zoho Books with WooCommerce lets you automate your store’s invoicing and comply with the regulations (VeriFactu and B2B electronic invoicing) through a robust workflow. At DominaInternet we set up the VeriFactu compliance layer: every invoice is logged, carries its QR and fingerprint, and submission to the AEAT (Spanish Tax Agency) is handled when applicable. The result is a complete, traceable circuit with no duplicated tasks.

Why integrate Zoho Books with WooCommerce?

Linking your WooCommerce store with Zoho Books means you stop copying orders by hand and start issuing compliant invoices automatically. These are the key benefits:

Automatic invoices: every WooCommerce order becomes an invoice in Zoho Books.
VeriFactu compliance: QR and secure logging on every document, with our implementation.
Tax handled properly: IRPF (withholding) for freelancers, VAT, separate series (for example, W- and F-), recurring invoices and multicurrency.
A single dashboard: manual invoices and store sales in the same place.

How the Zoho Books + WooCommerce workflow works

The full journey, from sale to compliant invoice, goes like this:

The customer buys on WooCommerce and the order moves to Completed.
The WooCommerce connector creates the invoice in Zoho Books with its taxes, customer and product line.
The compliance layer processes the invoice: logging and verification, QR and, if applicable, submission to the AEAT.
The PDF with the QR is generated and sent to the customer automatically.
You see everything centralized in Zoho Books: payments, series, credit notes and reports.

Zoho Books + WooCommerce integration in 7 steps

1. Set up Zoho Books

Complete the tax details (NIF, address, tax regime).
Create the series; for example, W- for the store and F- for manual invoices.
Enable IRPF when applicable (business clients).
Define the VAT rates and the invoice templates.

2. Install the WooCommerce connector for Zoho Books

In the store, add the connector from the official marketplace.
Connect it with your Zoho API Key or token.
Select the event that will trigger the invoice (for example, “Order completed”).

3. Map taxes and fields

Match WooCommerce VAT with Zoho Books taxes.
If you invoice businesses with IRPF, create a rule or rely on price lists and templates.

4. Configure series and numbering

In the connector, assign the W- series for the store.
In Zoho Books, reserve the F- series for manual invoices.
Ensure sequential numbering per series (W-0001, W-0002… / F-0001, F-0002…).

5. Activate VeriFactu

We enable traceability and the QR on every invoice.
Check that the QR and the legend appear on the generated PDF.
If you use the VeriFactu mode, confirm the AEAT’s OK during testing.

6. Recurring and multicurrency (if applicable)

Set up recurring service invoices in Zoho Books.
Run a test sale in another currency and review the exchange rate.

7. Test before going live

Create test orders: standard VAT, exempt, and with or without IRPF.
Validate the W- numbering, the PDF with QR, the email to the customer and the record in Zoho Books.
Once everything adds up, switch to production.

Recommended setup for freelancers

A few settings that make a difference day to day:

IRPF: add a withholding per client or template when needed (for example, −15%).
Credit notes: use a dedicated R- series.
Emails: enable automatic sending of the invoice when the order is completed.
Payments: sync the gateways (Stripe, PayPal or POS) to reconcile payments in Zoho Books.

Which connector should you use for Zoho Books and WooCommerce?

There are official connectors that sync products, customers and invoices. If you need custom rules (for example, that certain payment methods generate a different series), you can combine them with Zoho Flow in no-code mode or with a small custom integration. Either way, at DominaInternet we help you fine-tune it for VeriFactu. If you’d rather delegate it, take a look at our management software and our automation consultancy.

Typical cases we solve

Service e-commerce that needs an invoice with IRPF for business clients.
A store with subscriptions (recurring) that requires automatic monthly invoicing.
Multi-country sales: the right VAT per destination and a traceable report.
Teams that want to unify manual and store invoices without duplicates.

Frequently asked questions

Do Zoho Books and WooCommerce comply with VeriFactu?

Yes. Our implementation adds the required logging, the QR code on the PDF and, if you configure it that way, submission to the AEAT. Your store invoices automatically and compliantly.

Can I use different series?

Yes. Use W- for store orders and F- for manual invoices. Both run sequentially and you can add an R- series for credit notes.

How do I connect WooCommerce with my invoicing software?

Define templates and rules with withholding for business clients. The connector will create the invoice with the correct taxes based on the order.

Can I issue recurring invoices from Zoho Books?

Yes. Schedule the recurring invoices in Zoho Books or combine it with WooCommerce Subscriptions. Generation and sending to the customer are automated.

Shall we set it up for you?

If you’d rather not wrestle with connectors, series and QR codes, we’ll get it all working: the Zoho Books and WooCommerce workflow, the tax series and VeriFactu compliance.

Tell us about your case from the contact page
Ask us for a custom quote for your store
Get more out of your suite with the Zoho One setup

We help you invoice your WooCommerce store in line with VeriFactu, hassle-free and without duplicating tasks.