Hi Bwojtek,
Thank you for getting back to us here in the Community. Allow me to chime in and clarify things about reconciliation in QuickBooks Online.
Can you share which part in QuickBooks transactions is reflecting with the wrong bank account and amount? Any screenshots or additional details you can provide would help us provide much more accurate information to get you back on track.
Deleting transactions from a different account will not mess up the bank account you're reconciling. Please note only the specific transactions showing under your bank register in QuickBooks affect your account reconciliation.
The easiest way to process reconciliation is by taking out your bank statement. Physically mark the transactions that match the ones you entered into QuickBooks. This process gives you a much shorter list to work with.
We also have a complete guide to fix a bank reconciliation or edit completed reconciliations in QuickBooks Online. For your reference, check out this link: Learn the reconcile workflow in QuickBooks.
Drop us a comment below if you have more questions or clarifications about reconciling an account. We'll be happy to help you some more. Have a great day.
