What is going on? JS help

[eluser]muguling[/eluser]
Hello all,

I'm new as my post counts show, and just got my hands and feet wet with CI... liking it so far... better CakePHP I think.

I did quite a few searches here and google, nothing came up. So here's my problem, I am able to link my JS files etc... CSS files work fine, but JS files wouldn't run... For example, LiveValidation script, I did a test and it just sits there. No error, no nothing. So is mootools... just a simple grab of an ID and change the text, nothing...

I have moved my system and application folders as siblings instead of parent child, here's my file structure if it has anything to do with it.

System
applications
css
js
index.php

I also tried playing with the .htaccess, link it in different ways, etc... The CSS works fine, but no javascript... *sigh*

SOMEONE HELP ME!