function save_taxonomy_data($post_id) {
// verify this came from our screen and with proper authorization.
 
 	if ( !wp_verify_nonce( $_POST['taxonomy_noncename'], 'taxonomy_theme' )) {
    	return $post_id;
  	}
 
  	// verify if this is an auto save routine. If it is our form has not been submitted, so we dont want to do anything
  	if ( defined('DOING_AUTOSAVE') && DOING_AUTOSAVE ) 
    	return $post_id;
 
 
  	// Check permissions
  	if ( 'page' == $_POST['post_type'] ) {
    	if ( !current_user_can( 'edit_page', $post_id ) )
      		return $post_id;
  	} else {
    	if ( !current_user_can( 'edit_post', $post_id ) )
      	return $post_id;
  	}
 
  	// OK, we're authenticated: we need to find and save the data
	$post = get_post($post_id);
	if (($post->post_type == 'post') || ($post->post_type == 'page')) { 
           // OR $post->post_type != 'revision'
           $theme = $_POST['post_theme'];
	   wp_set_object_terms( $post_id, $theme, 'theme' );
        }
	return $theme;
 
}

http://shibashake.com/wordpress-theme/wordpress-custom-taxonomy-input-panels

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