At some point all files in my working copy got marked with \"S\" symbol as shown below:
$ svn st
M S AclController.php
S InstallationController.php
If you call 'svn info' on the directory itself and on (one of) the files inside you will get two different URLs.
You get the 'S' status if the url of a file/directory does not match the URL of the parent followed by the name of the file.
Can you post the url of the parent and one of the child nodes? (anonymizing the URL where appropriate)