I am trying to use the recommended htaccess file to remove the index.php.
but when I clear the Name of your site's index page in admin prefs the css will not load but everything else will on the templates.
my css: <link href="{stylesheet=global_embeds/site_css}" type="text/css" rel="stylesheet" media="screen" />
viewing source it appears fine: <link href="http://domain.com/?css=global_embeds/site_css.v.1379946470" type="text/css" rel="stylesheet" media="screen" />
<IfModule mod_rewrite.c>
RewriteEngine On
# Removes index.php from ExpressionEngine URLs
RewriteCond $1 !\.(gif|jpe?g|png)$ [NC]
RewriteCond %{REQUEST_FILENAME} !-f
RewriteCond %{REQUEST_FILENAME} !-d
RewriteRule ^(.*)$ /index.php/$1 [L]
</IfModule>
CSS is a css template in EE