My back up destroyed my dashboard.

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I recently hit update from the dashboard to version 5.5. It totally wacked out my website and deleted access to all my global blocks. (made them normal)
So I had made a back up of all my files previously from my Cpanel and went in and restored my files and data bases. Now my menu in the dashboard looks like the attached picture and half the buttons take me no where (page not found) including the update link.
Any help here? The website is now functioning normal but My dashboard does not give me access to my scrapbooks or many other pages. I did notice that my old dash board has been moved to the trash on my sitemap and appears on themed pages individualy.

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