Recently, I was working on a theme that was based on a modified version of TwentyTen, the default WP theme (www.corporate-chocolates.co.uk) and ran into an issue loading a jQuery file.
I had a .js file that ran a slideshow and some other functions and loaded it into my header.php file with this:
Solution? Put the call to the external file after the wp_head() line.
Incidentally, when loading jQuery into WordPress, it is better to use the full name rather than the $ alias as this prevents it conflicting with any other scripts that WP may be running.other page