QB Issue Resolution:
Problem is Paypal payment where they show deposit amount is net payment after taking out their Paypal fee.
In QuickBooks Online, there is no way to add line either on “Receive Payment” screen or on “Bank Register” screen. In QuickBooks desktop, they have split button, where as there is no split button in QuickBooks Online. And, this is a big problem.
Resolution for Issue 'How to account for paypal fees with quickbooks online while using the automatic sync?' available: Yes (Solved).
Source: Intuit Community forum.
How to account for paypal fees with quickbooks online while using the automatic sync?: this issue or error code is a known issue in Quickbooks Online (QBO) and/or Quickbooks. Support for this issue is available either by self-service or paid support options. Experts are available to resolve your Quickbooks issue to ensure minimal downtime and continue running your business. First try to resolve the issue yourself by looking for a resolution described below. If it is a complex issue or you are unable to solve the issue, you may contact us by clicking here or by using other support options.Support for Invoice
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Error Recovery for Invoice [Canada]
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