Uploading images to the correct directory
Here are the settings needed in WA_Globals/WA_Globals.php to connect to a /images folder below the root.
$WAGLOBAL_Images_Folder = "../images/"; //relative path to your images folder.
$WAGLOBAL_Swf_Folder = "../images/swf/";//relative path to your swf folder.
Even though the FCK editor adds the ../ to the image path it works fine.
What is missing is a files link which opens for the link button of the editor. I am about to post a solution to this in this forum under the Browsing for Links thread.