<script src="/mycom/promo/js/jquery.js"></script>
<script src="/mycom/promo/js/jquery.ui.js"></script>
<script src="/mycom/promo/js/jquery.waypoint.js"></script>
<script src="/mycom/promo/js/jquery.customselect.js"></script>
<script defer src="/mycom/promo/js/script.js"></script>
Если .htaccess лежит в корне (www-root виртуального хоста) /var/www/anotherdomain, то
RewriteEngine On
RewriteBase /