First off thank you for writing such a detailed instruction list including pictures. That really helped.
After modification and addition of files the site still however loads everything onto a single page on initial load without any movement from the user. I have deleted all cache, deleted original files on server, verified modified versions of files on server.
I should also note Ive triple checked and redone the process 3 times over using unmodified backup versions of my files in case something blew up.
Not sure what is going on. Strange right? Any idea what could be going on?