pdafiction.com hasn't been updated in years. Everything there is or was previously posted online at The Royal Academy of Bards, Xenafiction.net, or other fanfiction sites. Some of the authors/bards have removed their works as they've gotten published, but many have probably forgotten. The woman who maintains the site will remove anything at the authors request, though.
Having downloaded stories from this site, I can tell you that they are all exact replicas of what the authors posted online. They're unedited, rough works and many are full of copyrighted characters (Xena, Captain Janeway, Borg, etc).
It's my thought that if you publish a story on a webiste (for free) you really can't get upset if it migrates to another site since that is the nature of the Internet.
There are a few rough versions of books that have gone on to be published - KG MacGregor's books, Radclyffe has a few there, Ali Vali, Kim Baldwin, Lynn Ames, TJ Vertigo, RJ Nolan. Vali and a few others have had them removed upon publication, though, which tells me that finding the online versions of your works is the authors responsibility.
"Those who mind don't matter and those who matter don't mind." Bernard Baruch