8 best payment gateways for Shopify Malaysia (2026)

Key Takeaways:

• Shopify Payments is not available in Malaysia, so you’ll need to choose a third-party payment gateway to accept payments.

• Malaysian shoppers prefer local methods like FPX, DuitNow, and e-wallets, so your gateway needs to support them or you risk losing sales at checkout.

• Airwallex integrates directly with Shopify as a payment gateway, letting you accept payments from customers in Malaysia and 180+ countries worldwide.

Choosing the right payment gateway for your Shopify store in Malaysia is one of the most important decisions you'll make as a merchant.

Unlike store owners in some other countries, Malaysian merchants cannot use Shopify Payments, which means you need to use a third-party gateway.

This article focuses specifically on payment gateways: what to look for, which providers are available, how they compare on fees and local payment method coverage, and how to connect one to your Shopify settings.

For a full walkthrough of setting up a Shopify store in Malaysia, including plan costs, SST configuration, and logistics options, see our complete Shopify Malaysia guide.

8 best payment gateways for Shopify in Malaysia

No single gateway is right for every Malaysian Shopify merchant. The best choice depends on your customer mix, sales volume, and whether you sell locally, internationally, or both.

Here’s a quick overview, before we go into the individual payment gateways:

This information is based on publicly available information accessed on 8 Oct 2026. Information reflects Airwallex's own research and has not been independently verified.

1. Airwallex

Airwallex is the strongest option for Malaysian Shopify merchants who sell (or plan to sell) beyond Malaysia. It connects to your Shopify store via its native plugin and supports both local Malaysian payment methods (FPX and DuitNow) and 160+ international payment methods, so you don't need a separate gateway for local and cross-border transactions.

Unlike most gateways, Airwallex settles like-for-like in up to 12 currencies. If a customer pays in USD, you receive USD, with no forced conversion to ringgit at point of settlement.

2. HitPay

HitPay is particularly well suited to Malaysian Shopify merchants that want local payment methods without building separate integrations for each one.

It is a good fit for small and growing businesses that want a relatively simple setup while still offering customers familiar Malaysian payment options alongside cards and other payment methods.

Features:

• FPX for Malaysian online banking payments

• DuitNow QR for online and in-person payments

• GrabPay and other supported e-wallets

• BNPL options including Atome, Grab PayLater and SPayLater

• Direct Shopify integration through the HitPay Shopify app

• Card payments for domestic and international customers

• Payouts from T+1 for card balances and T+2 business days for non-card balances

Information in this section is based on HitPay’s official website as of 8 Oct 2026.

3. Billplz

Billplz is a Malaysian payment platform best known for local online payment collection, particularly among businesses and organisations that rely heavily on FPX.

It is a strong fit for merchants that want a Malaysia-focused gateway with straightforward local payment infrastructure, while its broader payment-method coverage also makes it suitable for Shopify stores serving customers who prefer cards, e-wallets or instalment payments.

Features:

• FPX online banking payments

• DuitNow QR and major Malaysian e-wallets

• Visa and Mastercard payments

• Instalment options including Atome and PayLater by Grab

• Shopify integration through a dedicated payment app

• Next-business-day FPX payouts

• API and 30+ integrations for other e-commerce and business platforms

Information in this section is based on Billplz’s official website as of 8 Oct 2026.

4. ADAPTIS (formerly iPay88)

ADAPTIS is NTT DATA Payment Services' payment gateway for businesses that need a broad range of online payment methods in Malaysia.

It is particularly suited to established businesses that want local payment coverage alongside enterprise-oriented payment infrastructure, recurring billing and fraud-management capabilities.

Features:

• FPX and DuitNow payments

• Visa, Mastercard, MyDebit, UnionPay, American Express, Diners Club and JCB

• Touch 'n Go, ShopeePay, GrabPay, MAE and Boost

• Recurring payment capabilities

• Email payment links

• 0% instalment payment plans

• Fraud mitigation and seller-protection tools

Information in this section is based on Adaptis’ official website as of 8 Oct 2026.

5. Stripe

Stripe is a strong fit for Malaysian Shopify businesses that want to sell to customers in multiple markets and manage payments through a single platform.

It combines local payment methods such as FPX and GrabPay with international cards, wallets and other payment methods, making it particularly useful for businesses with an international customer base.

Features:

• FPX for Malaysian online banking payments

• Visa, Mastercard and other major card networks

• GrabPay for Malaysian and Singaporean customers

• Alipay for Chinese customers and travellers

• Shopify integration

• Stripe Checkout and Payment Links

• 100+ payment methods across global markets

Information in this section is based on Stripe’s official website as of 8 Oct 2026.

6. PayPal

PayPal is a good fit for Malaysian Shopify merchants that want to offer PayPal alongside their existing payment methods, particularly if they sell to international customers.

Its checkout tools support PayPal payments and cards, while its eCommerce integrations make it suitable for merchants that want to add PayPal without building a payment system from scratch.

Features:

• PayPal payments

• Credit and debit card payments

• Shopify and other ecommerce-platform integrations

• Payment Links and buttons

• Recurring payments

• Mobile-friendly checkout

• Seller Protection on eligible transactions

Information in this section is based on PayPal’s official website as of 8 Oct 2026.

7. Fiuu

Fiuu is a good fit for Malaysian Shopify merchants that want broad coverage of local payment methods through a single integration.

It is particularly useful for stores that want to offer customers a mix of online banking, DuitNow QR, e-wallets, cards and BNPL options rather than relying mainly on card payments.

Features:

• FPX online banking

• DuitNow QR

• Touch 'n Go, ShopeePay, GrabPay, Boost and MAE

• Visa, Mastercard and MyDebit

• BNPL options including Atome and GrabPay PayLater

• Shopify payment app integration

• 110+ payment channels across Southeast Asia

Information in this section is based on Fiuu’s official website as of 8 Oct 2026.

8. Xendit

Xendit is particularly well suited to Malaysian Shopify merchants that plan to sell across Southeast Asia.

It combines local Malaysian payment methods with a regional payment infrastructure, making it a useful option for businesses that want to expand beyond Malaysia without managing a separate payment integration for every market.

Features:

• FPX online banking

• DuitNow QR

• Touch 'n Go, GrabPay, ShopeePay, WeChat Pay and Alipay

• Visa and Mastercard payments

• BNPL and instalment payment options

• Shopify integration through the Xendit Payments app

• Payment links and hosted checkout options

Information in this section is based on Xendit’s official website as of 8 Oct 2026.

What to look for in a Shopify payment gateway in Malaysia

Most gateways look similar on their pricing pages. The differences show up in your total cost, the payment methods your customers can use, and how fast you get paid. Check these five things before you choose.

Total transaction cost

Your cost per order can have up to three parts: 

• The gateway's payment processing fee

• Any additional fee the provider charges for Shopify transactions

• Shopify's third-party transaction fee

Not every gateway charges the second fee, so check the provider's Shopify-specific pricing rather than relying on its standard payment rates.

Here’s a quick comparison between Airwallex, HitPay and Stripe:

This example uses Shopify's Basic plan, which has a 2% third-party transaction fee. Shopify's fee varies by plan, so your actual total may be lower on Grow, Advanced or Plus. Rates can change, so check each provider's pricing page before you decide.

This example shows why it's worth looking at the total cost rather than the gateway's headline rate. HitPay, for example, adds a separate Shopify fee, which increases the cost of this RM100 order.

Local payment methods

Local payment methods can affect conversion. FPX, DuitNow QR and e-wallets give Malaysian customers alternatives to paying by card.

Check which methods each gateway supports through its Shopify integration, because a provider's wider payment-method offering may not mean every method is available through Shopify.

Shopify integration

Check how the provider integrates with Shopify. Some have a Shopify App Store app, while others use a payment-provider integration configured through Shopify's payment settings.

Also check what the integration supports at checkout, because Shopify features can differ from the provider's wider payment offering.

Payout speed

Payout speed affects how quickly you can access sales proceeds to pay suppliers or restock. HitPay pays out non-card payments in two business days (T+2) and card payments from one business day (T+1), while Stripe lets you choose between rolling, weekly or monthly payout schedules.

Ask each provider how its payout schedule applies to your account.

Verification and setup time

Most gateways require business verification before you can accept live payments. Have your company registration documents ready, and check each provider's requirements and approval process before you apply.

Payment methods Malaysian shoppers use on Shopify stores

Your customers can pay by online banking, QR code, e-wallet, instalments or card. Which options appear at checkout depends on the payment gateway you connect to Shopify, so choose methods that match where your customers are based and how they prefer to pay.

Here’s a quick overview:

FPX online banking

FPX lets customers pay directly from their Malaysian bank account. At checkout, they choose FPX, select their bank, log in to online banking and approve the payment.

FPX supports transactions from RM1 to RM30,000, although the customer's own bank may set a lower limit. Your payment gateway may also have its own limits, so check these if you expect larger orders.

DuitNow QR

DuitNow QR gives customers a simple way to pay by scanning a QR code with a participating bank or e-wallet app. For a Shopify store, the important thing is whether your payment gateway can offer DuitNow QR at checkout.

Don't assume that a gateway's general support for DuitNow QR means the method is also available through its Shopify integration.

E-wallets

E-wallets give customers another way to pay without entering their card details. Touch 'n Go eWallet, GrabPay and Boost are among the payment partners supported through DuitNow QR.

The specific wallets available at your Shopify checkout depend on your gateway, so check its Shopify integration rather than just its overall list of payment methods.

Buy now, pay later

BNPL lets customers spread the cost of a purchase over instalments. For example, Airwallex supports Atome for Malaysian shoppers, which lets eligible customers split a purchase into three or more interest-free monthly installments.

It can be worth offering for higher-value products, but check the fees and terms before adding BNPL to your checkout.

International cards and overseas customers

If you sell outside Malaysia, check how your gateway handles cards issued overseas as well as currency conversion.

Some gateways also let you offer local payment methods in other countries through the same Shopify integration, which can be useful as you expand into new markets.

Want to offer more payment options through Shopify? Airwallex lets Malaysian businesses accept cards, FPX, DuitNow QR and other local and international payment methods through a single Shopify integration.

How to set up a payment gateway on Shopify in Malaysia

Once you've chosen a payment gateway, you can connect it to your Shopify store from the Payments section of your Shopify admin.

The exact setup varies by provider, but the process generally involves creating your payment account, connecting it to Shopify, choosing the payment methods you want to offer and testing a transaction before you go live.

Step 1: Check that the payment gateway supports Malaysia

Before creating an account, check that the gateway is available for businesses in Malaysia and supports the payment methods you need, such as FPX, DuitNow QR, e-wallets and cards.

Shopify's payment provider list is filtered according to your store's location, so a provider available in another country may not appear in your Shopify admin.

Shopify also notes that a provider being listed on its website does not guarantee that it will be available for every store, as availability can depend on factors such as your store location, plan and payment configuration.

Step 2: Go to your Shopify payment settings

Log in to your Shopify admin and go to Settings → Payments.

If Shopify Payments isn't available for your store, you'll see the option to “Choose a provider” under the Payment providers section. If Shopify Payments is available but you want to use a third-party gateway, Shopify provides an option to view other providers.

Step 3: Choose your payment provider

Select the payment gateway you want to connect to Shopify. Depending on the provider and your Shopify setup, you may be asked to install the provider's payment app or connect an existing provider account.

The provider should appear in Shopify's list if it is available for your store and region. If you can't find it, check the provider's Shopify integration requirements and Shopify's payment gateway availability list before signing up.

Step 4: Create or connect your payment gateway account

If you don't already have an account, follow the provider's instructions to create one. You'll generally need to provide information about your business and bank account, and the provider may require identity or business verification before you can accept live payments.

If you already have an account, enter your existing login details or follow the provider's instructions to connect it to Shopify.

Step 5: Complete verification and activate your account

Some payment gateways require merchant verification before you can accept live payments. The documents and approval process vary by provider, so check its requirements before you start.

Don't assume that creating a Shopify connection means you're ready to accept payments. Your gateway account needs to be approved and activated for live transactions first.

Step 6: Connect the gateway to Shopify

Once your account is ready, follow the provider's setup instructions to connect it to Shopify. Depending on the integration, this may involve installing a payment app, logging into your gateway account and clicking Activate or Connect.

Shopify's current third-party provider setup requires you to enter your provider credentials and activate and save the connection. Some providers may have additional setup steps on their own platform.

Step 7: Activate the payment methods you want to offer

After connecting your gateway, check which payment methods are available for your Shopify checkout. Depending on the provider, you may be able to offer:

• FPX

• DuitNow QR

• Credit and debit cards

• Touch 'n Go eWallet

• GrabPay

• ShopeePay

• Other e-wallets

• Buy now, pay later options

The exact methods available depend on both your payment provider and your merchant account. A gateway may support a payment method generally but not offer it through its Shopify integration, so check the provider's Shopify-specific documentation.

Step 8: Check your store currency and payment settings

Make sure your Shopify store settings match the currencies you intend to accept. If you're selling primarily to Malaysian customers, you'll generally want to support MYR at checkout.

If you sell internationally, check whether your payment gateway supports the currencies and international cards you need. Currency support can vary between Shopify, your payment gateway and individual payment methods.

Step 9: Test your Shopify checkout

Before accepting real payments, place a test order and check that your payment gateway works as expected.

Depending on the provider, you may be able to use a test or sandbox mode. Check that:

• The payment methods you want to offer appear at checkout

• The customer can complete the payment successfully

• The order is recorded correctly in Shopify

• The payment appears in your gateway dashboard

• Refunds and cancellations work as expected

Shopify recommends checking the provider's own setup instructions for any additional testing or configuration steps.

Step 10: Start accepting payments

Once your gateway account is approved, connected and tested, switch from test mode to live payments if required by the provider.

Before launching, check the gateway's payout schedule, transaction fees and supported payment methods so you know what to expect when your first orders come in.

Why Malaysian businesses choose Airwallex for Shopify

Looking for a payment gateway for Shopify in Malaysia? Airwallex is a good option that lets you accept both local and international payments through one integration. Here’s what you get with Airwallex:

Accept payments in Malaysia and 180+ countries

Airwallex's Shopify integration supports 160+ local and international payment methods, including cards, FPX, DuitNow, GrabPay and other payment methods across 180+ countries.

Receive payments in multiple currencies

Airwallex supports like-for-like settlement, so eligible payments can be settled in the same currency your customer used rather than being converted to MYR. You can hold funds in different currencies and use them to pay your suppliers or contractors without incurring unnecessary conversions.

Built for businesses selling globally

If your Shopify store sells outside Malaysia, Airwallex also gives you access to multi-currency accounts, international transfers and corporate cards. This means you can use the same platform to collect customer payments, hold foreign currencies and pay overseas suppliers or business expenses.

You can set up an Airwallex account fully online, with no monthly fees or setup fees.

Frequently asked questions (FAQs)

What is the best payment gateway for Shopify in Malaysia?

The best payment gateway for Shopify in Malaysia depends on where your customers are and which payment methods they use. Airwallex is a strong option for businesses that sell both in Malaysia and internationally, as it supports local methods such as FPX and DuitNow alongside international payment methods through a single Shopify integration. HitPay and Billplz can be better suited to businesses focused mainly on Malaysian customers and local payment methods.

Does Shopify charge transaction fees in Malaysia?

Yes. Shopify Payments is not currently available in Malaysia, so Shopify stores using a third-party payment gateway pay a third-party transaction fee on each eligible sale: 2% on Basic, 1% on Grow, 0.6% on Advanced and 0.2% on Shopify Plus. This is separate from your payment gateway's own processing fee, so your total payment cost can include both Shopify's transaction fee and the gateway's processing fee.

How do I set up FPX on Shopify in Malaysia?

Shopify does not support FPX as a native payment method in Malaysia. To accept FPX payments, you need to connect a third-party payment provider that supports it, such as Airwallex. After your Airwallex account is approved for FPX, install the Airwallex payment app on Shopify, connect your Airwallex account and enable FPX as a payment method.

Can I use two payment gateways on Shopify at the same time?

Shopify generally allows only one third-party provider to process credit and debit card payments at a time. However, you can add separate providers for additional payment methods, such as PayPal, buy now, pay later services or regional payment methods, depending on your store's configuration.

How long does payment gateway approval take in Malaysia?

Payment gateway approval in Malaysia can take from a few hours to several business days, depending on the provider, your business documents and the payment methods you want to activate. Some providers can approve accounts within a few business days, while additional verification for cards or e-wallets may take longer. Submit complete and accurate business documents upfront to avoid delays.

Which Shopify payment gateway has the lowest fees in Malaysia?

There isn't one Shopify payment gateway with the lowest fees for every type of transaction in Malaysia. Compare the gateway's processing fee, any Shopify-specific surcharge and Shopify's third-party transaction fee together, as the cheapest option for FPX may not be the cheapest for cards or e-wallets. Airwallex, HitPay and Billplz all have different pricing structures, so the right choice depends on your payment mix and order value.

Sources:

1. https://hitpayapp.com/my/pricing

2. https://main.billplz.com/pricing

3. https://my.nttdatapay.com/en/payment-services/adaptis-e-commerce

4. https://stripe.com/en-my/pricing

5. https://www.paypal.com/business/paypal-business-fees

6. https://booster.fiuu.com/assets/Appendix_20260318.pdf?1775168604

7. https://www.xendit.co/en-my/pricing/