Ok, thanks for the effort. So there is no misunderstanding I want to make sure you understand the events that put us where we are now. I did not do anything except update PHP.
1) Page functionality and layout was working fine. Had been for a year.
2) Needed to do some modifications and Cornerstone wouldn't work.
3) You guys checked my site out and said I needed to update PHP.
4) I updated PHP to 5.6 and now the site pages are wacked and the pop up functionality is not functioning.
I did not modify, change, anything.
Before you do anything further, let me have my programmer look things over. I will get back to you.