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Shopify & eCommerce

Protecting the Store and the Orders

Shopify security and fraud for small stores: staff account access, two-factor authentication, app permissions, fraudulent orders and chargebacks.

Updated 2 min readBy SpiderHunts Technologies

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Quick answer — TL;DR

Shopify handles the platform security; your exposure is account access, app permissions and fraudulent orders. Two-factor authentication and reviewing high-risk orders covers most of it.

The platform is not your exposure

Shopify handles hosting security, patching and payment card compliance. That removes the largest category of risk that self-hosted stores carry.

What remains is yours: who can access the admin, what apps can do, and which orders you choose to fulfil.

Account security

  1. Two-factor authentication on every staff account, without exception
  2. Staff permissions limited to what each person needs
  3. Accounts removed the day someone leaves
  4. The account list reviewed quarterly
  5. App permissions reviewed — several request far more than they need
The most common compromise of a Shopify store is not technical. It is a staff account with a reused password and no second factor.

Fraudulent orders

Shopify flags high-risk orders. The flag is a prompt to look, not an instruction — and ignoring flags is how stores accumulate chargebacks.

  • Review every high-risk flag before fulfilling
  • Watch for mismatched billing and delivery addresses on high-value orders
  • Be cautious with express delivery on first-time high-value orders
  • Phone the customer where the value justifies it — genuine customers do not mind

Chargebacks

You will get some. What determines the outcome is evidence: proof of delivery, the order record, any correspondence, and your published policies.

Keeping delivery confirmation for every order is the single most useful habit for winning them.

Customer data

ObligationWhat to do
Privacy noticeSay what you collect and why
Data requestsKnow how to export a customer's data
Deletion requestsKnow how to honour them
App data sharingKnow which apps receive customer data
RetentionDecide how long, and apply it

FAQ

Frequently asked questions

The questions readers ask us after this guide.

Still have a question?

Ask us directly — a senior engineer will get back to you.

Ask about your project

Do we need PCI compliance?

Shopify handles card data, which removes most of the burden. You still have obligations around how you handle other customer data.

Should we cancel every high-risk order?

No — review them. Some are legitimate customers travelling or using a work address. Review, then decide.

What about app permissions?

Review what each app can access. Several request broad permissions they do not need, and each is an additional exposure.

How do we win chargebacks?

Evidence. Delivery confirmation, the order record, correspondence and your published policies, submitted promptly.

Keep reading

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