When I open a project the "Update Project Library" dialog appears.

It shows two VCC symbols and a GND symbol. In the dialog, the Current Version and Updated Version are identical in every respect.

I select all the components and confirm, but it just comes back.

It get's stuck in this loop until I hit cancel, then all the components that need updated have red squares around them in the schematic.

How do I stop this behaviour, without just switching off the update check?

You can see a screen capture of this here:

Screen Capture of the issue