I would Receive the Refund for the CT and deposit it to a Contra account. That will clear the Receivable.

 

Then, I would Pay the GST from the Contra account. That clears the payable.

Resolution for 'Contra Account issue: 'Balance Owing for GST at year end – Canada Revenue Transferred Balance from a CT Refund' available: Yes.

The Contra Account 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 Contra Account issue yourself by looking for a resolution described in the article. If it is a complex Contra Account issue or you are unable to solve the issue, you may contact us by clicking here or by using other Contra Account support options.

For more information about resolving issues related to Contra Account in Quickbooks/QBO or to get support for the issue 'Balance Owing for GST at year end – Canada Revenue Transferred Balance from a CT Refund', click the link below: