@tomas.halo
In order to avoid that problem, remove the following code from the duplicated wp-cycle.php (line 444) file, leaving it untouched on the original one:
add_action('wp_print_scripts', 'wp_cycle2_scripts');
function wp_cycle2_scripts() {
if(!is_admin())
wp_enqueue_script('cycle', WP_CONTENT_URL.'/plugins/wp-cycle2/jquery.cycle.all.min.js', array('jquery'), '', true);
}
Removing it will clean the code and avoid jquery bugs