Could just have another Automation Runbook PowerShell script that invokes the SharePoint REST API to upload the file using the hybrid worker again.
You’ll need to setup a service account or similar to authenticate during the Runbook. There’s an existing PS script already here that could use in the new runbook:
https://www.powershellgallery.com/packages/NVRAppDevOps/2.0.21/Content/Upload-FileToShp.ps1
Then once the job is completed with a successful return code, you can continue with your flow, if not then the condition could stop the flow and notify you there was an issue uploading the file.