Had the same problems today. I disabled the wpml_object_id_filter in Timber’s Menu class. Correct me if I’m wrong, but in older version of polylang this function was not available and Timber worked so I figured out Timber would probably still run without it. And so it did. Ofcourse this is just a temporary fix. I commented the following out:
// if ( function_exists('wpml_object_id_filter') ) {
// $menu_id = wpml_object_id_filter($locations[$slug], 'nav_menu');
// }