Removing index.php From Pre-Built Site

[eluser]Unknown[/eluser]
Hi There,

Totally new to CodeIgniter but been using EE for a while now so I'm not completely in the dark.

I was kind of handed this pre-built CodeIgniter site to revise and launch, and I'm having some trouble with the URLs. The links are set to go to pages without index.php. "No problem" I think, I'll just upload the standard "negative" method .htaccess file and we'll be all set. Well doing that completely removed all styles and images from the site.

What else should I try to get these index.php-less URLs working? Another type of .htaccess file? I'd rather not add index.php to the links if I don't have to...

Thanks!