How did you install it at GoDaddy? With their scripting? And what exactly are your environment's specifications?
I've also seen this when php versioning is wonked. Once, a server downgraded php on me, yet left the php.ini from the newer version.
Run php.info and compare that to the installed version in the cPanel. Some hosts need help running php 5.3 with an add handler in .htaccess. You may want to ask them about it.
i.e.
# Use PHP 5.3
AddType application/x-httpd-php53 .php
Or, decide you want a real MODX host and save yourself all the headaches. (see my sig)