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Why do my Gnome Shell icons on the right hand side of the top bar replicate themselves and what can I do to stop it?

On first start up there is the normal single set of icons but after hibernating the icons on the right double up. I have posted links to images to show this, I don't have 10 reps to post images.

It resets itself on 'Alt+F2' and then 'r' to reload the shell.

Before:

before

After:

after

Thanks in advance.

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