SickSquirrel on "Site pages are gone? All posts gone"

One of my sites needed a slight change. I did it then went to view it. Main page is fine. Every other page is gone.

So I clicked a month in the sidebar

Not Found

The requested URL /2011/03/ was not found on this server.

My change was on index.php. I changed Older Entries to Previous Page. Even if I screwed that up, the older months would still be viable.

I went through some Posts, hit View and all are 404. They are in my admin but not online. All 404 as /title-of-post was not found on this server

I looked through my Activity Monitor and only one removal

2013-12-15 09:15:51
Wordpress deleted 50 Shades of Grey on My blog

I need help. Oh I edited a missing post, hit Update but it still is not online.