mod_rewrite for multiple applications

[eluser]Aken[/eluser]
You could create a separate PHP file next to index.php (lets say rewrite.php), then change one of your RewriteRules to redirect to that script. Then you can see which one is going where at what times.

A CI generated 404 is typically a good thing, means the .htaccess is working (to a degree) and it's finding a file. Now you just have to make sure you know which one. Post up what you find if you still can't get it.