After restoring the site, I checked and saw that the template had an update. I thought, why not? I know better than to attack the T4 update because of known issues. I did perform an Akeeba backup before attempting updates today. When I did an update for just the template, the top and bottom header and footer were gone, just as when the T4 was updated. I tried to do a rollback, but the rollback didn't work. I kept getting the same template version, and the same issue.
I performed an update on the site and it is back to where the latest work I did on the site. Is the T4 issues related to the template updates?