Fix issues when flushing the auto queue

[stwiname]

Description

When flushing the auto queue any pending tasks would be added to out of order tasks, we now add a check to see if a flush has happened

Type of change

Please delete options that are not relevant.

• Bug fix (non-breaking change which fixes an issue)
• New feature (non-breaking change which adds functionality)
• Breaking change (fix or feature that would cause existing functionality to not work as expected)
• This change requires a documentation update

Checklist

• I have tested locally
• I have performed a self review of my changes
• Updated any relevant documentation
• Linked to any relevant issues
• I have added tests relevant to my changes
• Any dependent changes have been merged and published in downstream modules
• My code is up to date with the base branch
• I have updated relevant changelogs. We suggest using chan