We recently set up Symfony on a GoDaddy VS for web application development too. One thing you might want to consider is that your Symfony project directory should not be in your public html directory.

Editing the httpd.conf is kind of a pain, so I used the simple method of setting up the project directory in home/projects/. Then I symlinked web/sf to the PEAR Symfony dir, and symlinked the public html directory/ to /home/projects//web.

I’d be interested to hear how others have configured similar WHM/CPanel VDS boxes.