I followed the steps you gave. Thank you for those.
I am still getting the same issue as before. The admin menus show up at the top of the admin pages right where they should, but the are disabled. I can't get them to link to anything or work.
I verified that I am not editing anything as you suggested. I did a universal check in and purged all the caches. I also cleaned the cache on my browser.
As a second symptom of this problem the styling of the menu items seems slightly different from the main menu. It is subtle, but the menu items contain drop arrows and are slightly differently aligned. I included a snapshot of the issue below;