Direct Deposit paychecks hit different bank account than what shows in quickbooks online

It's my priority to help you with your Direct Deposit concern, pj-cherrypits.

When updating your Direct Deposit account, we need to update your bank account in the Payroll settings. This ensures the paychecks processed through the new bank account are properly listed in the correct check register.

Let me show you how:

1. Go to the Gear icon on the top menu.
2. Select Payroll settings.
3. Click Preferences.
4. Select Accounting Preferences.
5. In the Checking Account drop-down arrow, select the correct account.
6. Tap OK. 

For more details about changing bank account, check out this article: Change bank account information.

For the existing paychecks that are posted to the old bank account, we can enter them as journal entries. This way, you can use them to reconcile the account. Also, I'd suggest consulting your accountant on what posting accounts you need to apply. 

You can either combine all of the employees' paycheck totals into one journal entry or create a separate entry for each employee. To make sure the amounts are accurate, you can run a payroll report for reference.  

Here's how: 

1. Click + New on the left panel.
2. Select Journal Entry.
3. Under the Journal date, enter the paycheck date.

For more details about entering the debits and credits for wages and taxes, as well as a sample paycheck, check out this article: Manually enter payroll paychecks in QuickBooks Online.

I've got a link here that provides you with articles about managing your payroll: https://quickbooks.intuit.com/learn-support/en-us/payroll-and-workers/07?product=QuickBooks%20Online.

Keep me posted if you need a hand with reconciling your bank accounts or any QBO related. I'll be here to help. Take care always. 

My situation is complicated even further.  My old bookkeeper reconciled the paychecks in the bank account that the checks were paid from.  Now those checks were added and reconciled but in the account where the paychecks posted too, they are not reconciled.  I can not figure out how to clear the un-reconciled checks from the old account without impacting something.

Hi there, @Tsbg06.

All reconciled transactions in the register will have a reconciled status indicated with " R ". 

If these transactions are showing up on the reconciliation page, you can go to the bank's register. Then manually mark it as Reconciled. This way, it won't show up on the next succeeding month's reconciliation. I'd also suggest reaching out to an accountant so they can give you the best advice on how to deal with these transactions.

I'll show you how: 

1. Go to the Gear icon and click Chart of accounts.
2. Locate the bank you want to reconcile and select View register.
3. Filter the transactions to display like that date into the year 2008.
4. Under the Reconciliation status column indicated with a checkmark, click the transactions and repeatedly click the box until you'll see the " R " status.
5. Click Save and select Yes to confirm the action.

You can check out these references for more information about the reconciliation process:

• Reconcile an account in QuickBooks Online
•  How to view, print or export a reconciliation report. 

I'll be here if you have other questions. Take care and have a great day!