Su pongo que te refieres a incomunicar los Scripts entre si...
Pero supongo que clean-blog depende de bootstrap y bootstrap depende de jQuery
Scripts de Clean_Blog
Código HTML:
<!-- jQuery -->
<script src="<?= base_url('clean_blog/js/jquery.js') ?>"></script>
<!-- Bootstrap Core JavaScript -->
<script src="<?= base_url('clean_blog/js/bootstrap.min.js') ?>"></script>
<!-- Custom Theme JavaScript -->
<script src="<?= base_url('clean_blog/js/clean-blog.min.js') ?>"></script> Ejemplo noConflict:
Código HTML:
<!doctype html>
<html lang="en">
<head>
<meta charset="utf-8">
<title>jQuery.noConflict demo</title>
<script src="https://code.jquery.com/jquery-1.10.2.js"></script>
</head>
<body>
<div id="log">
<h3>Before $.noConflict(true)</h3>
</div>
<script src="https://code.jquery.com/jquery-1.6.2.js"></script>
<script>
var $log = $( "#log" );
$log.append( "2nd loaded jQuery version ($): " + $.fn.jquery + "<br>" );
// Restore globally scoped jQuery variables to the first version loaded
// (the newer version)
jq162 = jQuery.noConflict( true );
$log.append( "<h3>After $.noConflict(true)</h3>" );
$log.append( "1st loaded jQuery version ($): " + $.fn.jquery + "<br>" );
$log.append( "2nd loaded jQuery version (jq162): " + jq162.fn.jquery + "<br>" );
</script>
</body>
</html>