Well, after much frustration and agony, my server is finally back. I have found that:
If you are going to use Samba, it helps to have it installed before you try to put in in the fstab as a file system.
You should really make the plugins and content folders on your server writable before you try to update plugins.
Spaces at the end of a .php file, particularly after the ?> can wreak havoc with your site.
Remembering passwords is an absolute must.
You should never forget about the file wp-config.php
So after much googling and brainstorming, I have my blog back, hopefully it loads a bit faster and is a bit cleaner. Now if my internet would just behave… 
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