How to Record Bank Charges in QuickBooks Desktop & Online?

Highlights (Key Facts & Solutions)

• Primary Goal: To accurately account for bank service fees, ATM charges, and credit card processing fees to ensure QuickBooks registers match official bank statements during reconciliation.
• Essential First Step: Create a dedicated Expense Account using the Bank Charges detail type to categorize all fees correctly .
• Handling Short Payments: When a customer payment is short due to a fee, use the Find Match feature in Bank Transactions and select Resolve to record the missing amount as an expense against the Bank Fees Expense Account.
• Recording Fees on Deposit: When making a deposit, bank fees are entered as a negative number (e.g., −5.00) on the Add funds to this deposit section to correctly reduce the deposit total to match the net bank amount .
• Best Practice for Payments: Utilize the Undeposited Funds account to hold payments temporarily; this allows fees to be recorded accurately when the payments are grouped and deposited, avoiding reconciliation errors.
• Advanced Method (Online): For complex payment processing fees against an open invoice, a Journal Entry is used to Debit the Bank Charges Expense Account and Credit the Accounts Receivable to settle the remaining balance.
• Desktop Requirement: In QuickBooks Desktop, a Service item linked to the Bank Fees Expense Account must often be created to properly record fees on forms like Adjustment Notes .

Overview

When you reconcile bank transactions for your small business with QuickBooks, you may occasionally need to record a bank fee. Intuit’s QuickBooks application handles bank fees in the same location as the checks that you record in the register. Users can easily enter their bank fees using the Banking feature.

To make a profit and pay operating expenses, banks typically charge for the services they provide. When a bank lends you money, it charges interest on the loan. When you open a deposit account, such as a checking or savings account, there are fees for that as well. Even fee-free checking and savings accounts have some fees. It’s important to know all the fees your bank charges, as well as how to reduce or eliminate as many of them as possible. It all starts with an understanding of the fees that banks charge. 

When you reconcile bank transactions for your small business with QuickBooks, you may occasionally need to record a bank fee. Intuit’s QuickBooks application handles bank fees in the same location as the checks that you record in the register. Users can easily enter their bank fees using the Banking feature. 

QuickBooks offers various methods for entering the bank fees, such as clicking the Product and Services button or hitting the Adjustment Note tab. With these methods, you can successfully record the fees and maintain the information related to your accounting operations. Once you’ve recorded your bank fees, you’ll be able to properly reconcile your company’s bank accounts against your bank’s statements.

Why are Bank Charges Important?

Banks charge fees to help make a profit. Bank fees allow financial institutions to reimburse operating expenses. Banks also make money on loans via interest and other fees. The major types of bank fees are charged by automated teller machines (ATMs), as well as overdraft, wire transfer, paper statement, inactivity, and account maintenance fees.

Steps to Be Performed Before Recording Bank Charges in QuickBooks!

If you received less than the due amount on invoice because of bank fees, and you need to record this from the bank feed, create an expense account for bank fees if you don’t have one already and then resolve the difference when matching the transaction from your bank feed. 

(a.) Create an Expense Account

The first step is to create an expense account for bank fees if you don’t already have one. Here’s how:

Note: If you’ve connected the Accept Card Payments with the PayPal app, the expense account PayPal Fees is already created for you, and you can skip this step.

Step 1: Go for the Chart of Accounts

• Navigate to Transactions and then select Chart of Accounts.

Step 2: Select New & Expenses

• Click New and then select Expenses from the Account Type dropdown. 

Step 3: Add Bank Charges

• Choose the Bank charges from the Detail type dropdown. 

Step 4: Finishing up

• Type Name as Bank fees and then hit the Save and Close tabs. 

Now, the account is created, and you’re good to go.

(b.) Resolve the Difference Between the Invoice and the Payment

Once you have an expense account for bank fees, you can resolve the difference between the invoice and the payment when matching transactions from your bank feed.

For this, do the following:

Step 1: Select the Bank Account

• Hover over Transactions and select Bank Transactions. Then, click on the Bank account with the transaction. 

Step 2: Find Match 

• Locate and choose the relevant transaction on the For Review tab. Later, select the Find Match icon.  

Step 3: Mark the Appropriate Invoice 

• Tick mark the checkbox for the appropriate invoice under the Match Transactions window. 

Step 4: Add Resolving Transactions 

• Choose Resolve to open Add Resolving Transactions. 

Step 5: Pick the Bank fees Expense Account 

• Click on the Bank fees expense account you created in the Category dropdown menu. 

Step 6: Type the Bank fee amount

• Enter the amount of the bank fee. 

Step 7: Finishing up

• Click on the applicable GST and then press Save. 

Your transaction is now matched off against the invoice, and the bank fees are accounted for.

How to Record Bank Charges in QuickBooks Desktop?

Record Bank Charges Manually in QuickBooks Desktop

For recording bank fees manually when you have your bank account connected to QuickBooks, adhere to the steps listed below:

Part 1: Create an Expense Account to Allocate your Bank Feeds to

Step 1: Go for the Chart of Accounts 

• Navigate to Bookkeeping and then select the Chart of Accounts. 

Step 2: Create an Expense Account 

• Press New on the right-hand side, then Create an Expense account and name it Bank Fees. 

Step 3: Finishing up 

• Hit the Save tab. 

Part 2: Create a Product/Service

Step 1: Select Products and Services 

• Hit the Gear icon at the right-hand corner and then choose Products and Services under the Lists column.

Step 2: Opt for Service 

• Press New on the right-hand side and then click on the Service icon. 

Step 3: Add the Expense Account

• Name it Bank Fees, and then select the Expense Account you just created under the Income Account section. 

Step 4: Finishing up 

• Click on the Save button. 

Part 3: Create an Adjustment Note

Step 1: Make Adjustment Note

• Click + New and then select Adjustment Note.

Step 2: Select Customer & Bank Fees Service 

• Choose the Customer and Bank Fees service you just created. 

Step 3: Add the Amount 

• Enter the Bank Fee amount.

Step 4: Finishing up

• Press the Save button.

Part 4: Match the Adjustment Note to the Outstanding Invoice

Step 1: Add Customers

• Head to Sales and then choose Customers. 

Step 2: Pick Relevant Invoice

• Select Relevant Invoice. 

Step 3: Make Payment

• Click on the Make Payment option. 

Step 4: Mark the Adjustment Note Off 

• Tick mark the Adjustment Note off against the Invoice. 

Step 5: Finishing up

• Hit the Save icon. 

Record an Invoice Payment in QuickBooks Desktop for Windows & Mac

Part 1: Record an Invoice Payment in QuickBooks for Windows

Step 1: Select Receive Payment

• Under the QuickBooks Home page or the Customers menu, choose Receive Payment.

Step 2: Add the Customer

• Enter the customer’s name in the Received From dropdown menu. 

Step 3: Enter the Amount 

• Write down the Amount you received. 

Step 4: Pick the Payment Method

• Make sure the Date is correct, and then select the Payment method.

Step 5: Go for the Invoice & Invoices

• Choose the Invoice or Invoice you’d like to pay.

Step 6: Mark Discount and Credits 

• Click on the Discounts and Credits to add a discount or credit. 

Step 7: Finishing up 

• Click the Save & Close tabs. 

Part 2: Record an Invoice Payment in QuickBooks for Mac

Step 1: Go for Receive Payments 

• From the Customers menu, select Receive Payments. 

Step 2: Create a Payment 

• Click on Create a Payment and then fill out all the necessary fields.

Step 3: Select the Outstanding Invoices and Charges 

• Choose the outstanding invoices and charges you’re receiving the payment for. A check starts displaying beside the invoice or charge.

Step 4: Decide how you want to deposit the payment

• Select Group with other undeposited funds to hold the payment in your undeposited funds account, or click on Deposit to then enter a specific bank account.

Step 5: Finishing up 

• Press the Save button.

To edit a payment, choose a payment in the list, then edit the info. Or, hit the Show/hide customer information icon to view a history of the payments for a customer. 

Match Your Downloaded Transactions in QuickBooks Desktop 

You are recommended to match and adjust downloaded transactions, especially if there are fees. The only way is to create a bank deposit and manually add the fee.

Below are the steps to be followed:

Part 1: Deposit the Invoice Payment to the Undeposited Funds Account

Step 1: Make Deposits 

• Navigate to the Banking menu and then select Make Deposits. 

Step 2: Select the Payment 

• Under the Payments to Deposit window, choose the payment you want to deposit. Then, press the OK button.

Step 3: Pick the Account 

• On the Make Deposits window, click on the account you want to put the deposit into from the Deposit to drop-down menu.

Step 4: Add the fee 

• Type the fee on the next line as a negative amount.

Step 5: Finishing up

• Fill out the details as needed, then press Save & Close.

Once done, you can now match it on your bank feeds.

Part 2: Match the deposit with Payment on the Checking Account

After manually entering the deposit in QuickBooks, you can match it with payment on the Checking account and it won’t cause duplicate entries on your Chart of Accounts.

Step 1: Locate Downloaded Transactions 

• Find/locate a downloaded transaction using the Match option under the Action column on the Banking page.

Step 2: Write down the Date, Description, Payee and the Amount

• Note down the Date, Description, Payee, and Amount spent or received. 

Step 3: Opt for the Downloaded Transactions 

• Select the downloaded transactions to expand the view. 

Step 4: Review the Matching Records

• Analyze the Matching records found in QuickBooks. This is the possible matching transaction you already entered in QuickBooks.

Step 5: Browse the Link

• Click on the link beside each match to get more detailed information. 

Step 6: Check the Payment method and Bank Account fields

• Ensure that this is the correct match. To be specific, review the Deposit to, Payment method, and Bank account fields on forms for the existing transaction in QuickBooks.

Step 7: Finishing up

• If you find the correct match, close the open transaction. Then, hit the Match​ icon.

How to Record Bank Charges in QuickBooks Online?

Record Bank Charges in QuickBooks Online When Receiving Payment from a Customer

You may incur bank charges when receiving payments from your customers. As a result, you’ll encounter issues when it comes to recording the bank charges. 

Part 1: To Record Bank Charges

Step 1: Select Journal Entry 

• Click + New and choose Journal Entry. Then, type the Journal Date.

Step 2: Enter the Double Entries 

Under the empty table, input the following double entries:

• First line, Account: Trade and other receivables / Accounts Payable, Credit: Amount, Name: Customer name
• Second line, Account: Bank charges expense account, Debit: Amount

Step 3: Finishing up

• Press the Save and Close buttons. 

Part 2: To Settle the Open Invoice with the Journal Entry

Step 1: Select All Sales 

• Move to Sales and then choose All Sales. Then, find the invoice that has incurred the bank charges. 

Step 2: Receive Payment 

• Select Receive Payment at the top right of the invoice. 

Step 3: Mark the Invoice and the Journal Entry

• Tickmark to choose the invoice and the Journal Entry under the Receive Payment page. 

Step 4: Enter the correct Amount 

• Make sure the Amount received is correct (total invoice amount – bank charges = Net amount received).

Step 5: Finishing up 

• Hit the Save and Close tabs. 

Record Bank Charges in QuickBooks Online When Reconciling a Checking Account

Some financial institutions include processing fees while you’re on the bank deposit window. If this is your case, the steps listed below are for you:

Step 1: Go for Bank Deposit 

• Navigate to the +New and then choose Bank Deposit under Other. 

Step 2: Type the Required Details

• Enter all the necessary information. 

Step 3: Add funds to the deposit 

• Scroll down to locate the Add funds to this deposit and type a charge in the line item. Then, select who gave these fees. 

Step 4: Select Bank Charges 

• Choose Bank Charges in the Account dropdown menu. 

Step 5: Enter the Amount 

• Write down the amount as a negative number. Check and review the deposit total along with its fee. 

Step 6: Finishing up

• Click Save and Close tabs. 

However, if your account doesn’t have a bank charge account, you can create one.

For this, follow the steps below:

Step 1: Add Funds 

• Hover over Add funds to this deposit on your Bank deposit page. 

Step 2: Mark the Account drop-down 

• Select the Account dropdown menu and then click +Add new. 

Step 3: Select Expenses & Bank Charges 

• A new window will pop-up on your screen and then choose Expenses under the Account Type and Bank Charges under the Detail Type.  

Step 4: Finishing up

• Enter a name you can easily remember, such as “Bank Fees.”

Enter your Bank Fees in QuickBooks Online

Banking fees are entered as bank charges before a bank account is reconciled. The amount is then considered negative since it is an expense taken out from your bank account.

Let’s see how:

Step 1: Go for Bank Deposit 

• Head to the +New button and then choose Bank deposit under Other. 

Step 2: Select Bank Charges

• Click on Bank Charges under the Account column. 

Step 3: Enter the Banking fees total Amount 

• Type the total amount of your banking fees within the reconciliation period. 

Step 4: Finishing up

• Press the Save and Close tabs.

Enter Bank Charges as a Negative amount in QuickBooks Online

You can enter the bank service fee as a new Service item or type the bank service fee amount into the register so it matches the bank statement. Once done, enter the fee as a negative amount on the Bank Deposits screen upon depositing a payment.

Here’s how:

Step 1: Select Receive Payments 

• Click + New icon at the top and then choose Receive Payment.

Step 2: Enter all the Payment information 

• Type all the payment information and tick mark the checkbox next to the invoice you would like the payment to be applied to.

Step 3: Go for Undeposited Funds 

• Select Undeposited funds from the Deposit To dropdown menu and press Save and Close to record the transaction.

Step 4: Add Bank Deposit

• Press + New and then choose Bank deposit.

Step 5: Pick Existing Payments 

• You should see the payment you entered in the Select Existing Payments included in this deposit section at the top. 

Step 6: Decide the Payment 

• Place a checkmark to select the payment you want to deposit.

Step 7: Write the Amount of the Bank Service fee 

• Under the Add other funds to this deposit section, enter the amount of the bank service fee charged to you by the credit card company as a negative amount.

Step 8: Choose the Expense Account

• Select the Expense account you usually use to track bank fees in the Account section.

Step 9: Finishing up

• Check that the deposit amount is accurate. Then, hit the Save and Close tabs to record the transaction.

Bottom Line!

Banks provide a tremendous service, and our worldwide economy probably couldn’t function without them. In this article, we can clearly see that these services aren’t free. The best protection you have is to be aware of the fees you are paying and not unquestionably accept them. Accurately Recording the ins and outs of bank accounts, credit, fees, and savings can help you avoid penalties or some major mistakes.

FAQs!

1. What is the correct way to categorize a standard monthly bank service fee in QuickBooks?

Standard monthly service fees, such as account maintenance or inactivity charges, should be categorized as a direct expense against an Expense Account dedicated specifically to bank charges.

• QuickBooks Recommended Account Setup:
  • Account Type: Expense
  • Detail Type: Bank Charges
  • Account Name: Bank Fees (or Service Charges)

This setup ensures that the fees are correctly reported on your Profit and Loss statement as an operating expense, allowing for easy tracking during tax preparation.

2. How should I handle a customer payment that is less than the invoice amount due to a credit card processing fee?

When a customer pays an invoice, but the received amount is short because the bank or payment processor immediately deducted a fee, you must account for the difference during the payment matching process.

• Solution in QuickBooks Online Find Match:
  • Locate the bank transaction on the Bank Transactions screen.
  • Select Find Match.
  • Tick mark the original full invoice amount.
  • Use the Resolve feature to open the Add Resolving Transactions section.
  • Enter the fee amount as an expense, categorized to your Bank Fees Expense account.

This process matches the full invoice amount, records the payment, and simultaneously accounts for the expense, zeroing out the transaction against the bank feed.

3. When recording a bank fee, why is the amount entered as a negative number in theBank Deposit window?

In the Bank Deposit window, all line items in the Add funds to this deposit section are typically positive unless you are recording an item that reduces the total physical deposit amount.

• Reason for Negative Entry: Bank fees, whether they are processing charges or ATM fees, represent money taken out of the funds before the deposit reaches your account. Therefore, entering the amount as a negative number (e.g., 5.00) ensures the fee is treated as an expense and correctly reduces the overall deposit total, matching the net amount shown on your bank statement.

4. Why should I use the Undeposited Funds account when receiving customer payments before making a bank deposit?

Using Undeposited Funds is a best practice in accrual-based accounting to accurately track cash handling before it physically appears in your bank account.

• The Two-Step Process:
  • Step 1 (Receive Payment): The payment is recorded and temporarily held in the Undeposited Funds account. This is a holding asset account.
  • Step 2 (Make Deposit): You group multiple payments from the Undeposited Funds account and then deposit them into your Checking account. This is the correct stage to record any associated bank fees (as negative line items).

This two-step method ensures the grouping of funds in QuickBooks exactly matches the lump sum deposit that appears on your bank statement, making reconciliation much easier.

5. What is the role of a Journal Entry when recording bank charges against an open invoice in QuickBooks Online?

A Journal Entry is used when receiving payment for an invoice where the bank fee has already been deducted, and the transaction is too complex for a simple Find Match. It allows precise control over Debits and Credits.

• Journal Entry Logic (Simplification):
  • Debit: Bank Charges Expense Account (records the fee).
  • Credit: Accounts Receivable or Accounts Payable (reduces the open balance of the invoice/liability by the fee amount).

The Journal Entry effectively lowers the outstanding balance of the invoice by the exact fee amount, allowing the net payment received from the bank feed to settle the remaining balance cleanly.

6. Why do I need to create a Product or Service item for Bank Fees in QuickBooks Desktop?

In QuickBooks Desktop, certain transaction forms, such as Adjustment Notes or Invoices (used for specific workflows), require a Product or Service item to specify the account impacted.

• Functionality Requirement:
  • Creating a Service item named Bank Fees (or similar) ensures that the item is mapped to the corresponding Bank Fees Expense Account in your Chart of Accounts.
  • This allows you to select Bank Fees on forms that only accept Product or Service line items, automatically directing the transaction value to the correct expense account.

7. If I record a bank fee manually, why is it necessary to match it against the bank feed later instead of just adding it?

If you manually record the bank fee directly into the QuickBooks register, you are creating an anticipated transaction. When the bank feed downloads the actual transaction, you must match them.

• Preventing Duplicates: Matching is essential to avoid creating a duplicate entry on your Chart of Accounts. If you just “add” the downloaded fee, you will have two identical fee transactions (the manual one and the downloaded one) on your register.
• Validation: Matching ensures the fee recorded manually in your books is exactly what the bank charged, validating the date and amount before it is officially cleared for reconciliation.

Disclaimer: The information outlined above for “How to Record Bank Charges in QuickBooks Desktop & Online?” is applicable to all supported versions, including QuickBooks Desktop Pro, Premier, Accountant, and Enterprise. It is designed to work with operating systems such as Windows 7, 10, and 11, as well as macOS.