I got almost everything working but I have a few issues because of NGINX. I am no NGINX expert and my NGINX expert is sick in the hospital.
Here are my issues...
1) My XenForo is installed in /xen/ off the root (vBulletin was installed in /) - How do I forward all connections to index.php and forum.php while still being able to access the other files ad directories in the / folder. (Meaning if anyone goes to http://www.mywebsite.com, http://www.mywebsite.com/forum.php or http://www.mywebsite.com/index.php they are instead taken to http://www.mywebsite.com/xen - Or in the case of the forum.php they go to http://www.mywebsite.com/xen/forums/)
2) I used the vb4 redirectrion add on (http://xenforo.com/community/resources/vbulletin-4-x-url-redirection.120/) and while its working instead of taking threads indexed at Google to http://www.mywebsite.com/xen/threads/threadurl.212312 it is taking the /xen/ out which is weired because people can see the message but since the /xen/ is missing there is no CSS.