Hi, The configuration of a module will affect to that module only, when you create other modules, you need configure those modules.
When you disable sef, you need clean the cache of Joomla and update the self components (sh404, artio, etc.).
Those are from limitation of Joomla sef.
Thanks
If you need to send us FTP access / host access, administrator access or any private information:
services(at)omegatheme(dot)com or drop a ticket
www.omegatheme.com/member/