How to Add Transaction Fees

Transaction fees are the charges payment providers and marketplaces take on each order. Set them up once and Profitario deducts them from your profit automatically.

Set Up Fees for a Payment Gateway

Open Transaction Fees in your shop's menu. A payment gateway appears in the list once your store has processed at least one order through it, together with its order count.

The list shows each gateway's status and configured rates. Orders that were not paid through any gateway, such as marketplace orders, are grouped at the bottom under No payment gateway (covered below).

Click Set Up Fees on a gateway to enter its rates.

The form's first step holds the fee configuration; in the second step you choose which orders the rule applies to. A fee rule has three parts:

Percentage fee. A percentage of the order total. If your gateway charges 2.9%, enter 2.9.

Fixed fee. A flat amount per transaction, regardless of order size. If your gateway charges $0.30 per transaction, enter 0.30.

Shopify third-party fee. Shopify charges an extra percentage when you use a gateway other than Shopify Payments. The rate depends on your Shopify plan:

If you use Shopify Payments as your gateway, this fee is 0%: Shopify waives it for its own payment processor.

Fees that only apply to some orders, such as international card surcharges or currency conversion fees, are under Show advanced fee settings. For most stores, the base fees alone give a good estimate.

Overrides for Specific Payment Methods

Some gateways charge different rates depending on how the customer pays. On Shopify Payments, for example, a customer paying with Klarna is charged a higher rate than one paying with a regular card. The default fee you set on a gateway covers every order paid through that gateway. To track one payment method at a different rate, add an override on top of the gateway default.

Once a payment method has been used on at least one order, it appears as an indented row beneath its gateway, with the number of orders Profitario has seen for it. Click Add Override to enter a custom rate. The form pre-fills the values from your gateway default, so you only change the fields that differ.

Profitario picks the most specific rule for each order: the override for the order's payment method if one exists, otherwise the gateway default.

To remove an override, click the trash icon on its row. The gateway default takes over again. To delete an entire gateway, remove its overrides first. Profitario warns you and lists the active overrides if you try to delete a gateway that still has any.

Fees for Marketplace Orders

Orders forwarded to your Shopify store by a marketplace or an external system are usually not paid through a payment gateway: the marketplace collects the payment itself and sends the completed order to Shopify. These orders appear at the bottom of the list in the No payment gateway group, split by sales channel.

A sales channel appears automatically once Profitario has imported at least one order from it without a payment gateway. A channel without a fee rule shows No fee applied: no transaction fee is deducted for its orders until you add one.

To set up a channel, click Add Transaction Fees on its row and enter the percentage the marketplace charges, usually called a conversion fee or commission. You can add a fixed fee per order as well.

For example, if a marketplace charges a 15% conversion fee, enter 15. An $80.00 order from that channel then gets a $12.00 transaction fee.

A default for everything else. The Add Transaction Fees button on the No payment gateway row itself sets a fallback rule. It applies to every order without a gateway from a channel that has no rule of its own. When both exist, the channel rule wins. As with payment-method overrides, remove the channel rules before deleting this fallback.

Applying fees to existing orders. In the second step of the fee form, choose which orders the rule applies to: future orders only, orders from a specific date onward, or all existing orders. Pick All existing orders to add the fee to orders that are already imported, for example after setting up a marketplace channel for the first time.

See Also

• What Is the Handling Fee?
• How to Manually Change the Cost of an Order
• Calculation Settings Guide

Updated on: 27/07/2026