If you specify includeDocs it will only list those docs, so you'll need to either set startId to your parent or include the neccessary parents in the includeDocs call.
(Line 539 in wayfinder.class.php: )
/* if set, limit results to specific resources */
if (!empty($this->_config['includeDocs'])) {
$c->where(array('modResource.id:IN' => explode(',',$this->_config['includeDocs'])));
}