I have upgraded from 3.8.5 to 4.0.3 and everything went smoothly except I had to uninstall my older products one by one. Now when I run diagnostics, I keep getting the same message over and over again that some files are not recognized as vBulletin files so I delete them and run diagnostics again, I get that these same files are missing. I upload them again but still get that they are not vb files. The files in main vb root:
forum.php File not recognized as part of vBulletin index.php File does not contain expected contents
This file is in clientscript/yui/history/assets:
blank.html File does not contain expected contents