QB Issue Resolution:

There’s two options for this situation.

 

As you already have the payments recorded in QuickBooks from Sage, you don’t need to record the payments against the filing as this will cause a duplicate. Its fine to leave this showing as filed with ‘record payment’ on the taxes screen, HMRC don’t see this part of QuickBooks, but I understand this doesn’t look as ‘tidy’ as having them all marked as paid.

 

If you choose to mark them as paid, you’ll need to locate the payments from Sage by viewing the Chart of accounts in QuickBooks and locating the account that the payments were posting to. After finding the two payments, delete and then go to the taxes tab and record the payment against the filing. The recorded payment will post to the payment account selected and as a debit against the VAT Suspense account.

Resolution for Issue '' available: Yes (Solved).
Source: Intuit Community forum.

: 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.

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