English (main) menu not showing

It has nothing to do with Bogo plugin. The theme you use doesn’t apply proper style to the nav menu. Try switching to another theme.

Solved. in mer registration at function.php i change it to

/* Register Menu */
function register_menu() {
  register_nav_menu('en_US_primary-menu', __('Primary Menu EN', 'stag'));
  register_nav_menu('id_ID_primary-menu', __('Primary Menu ID', 'stag'));
  register_nav_menu('ms_MY_primary-menu', __('Primary Menu MY', 'stag'));
}

add_action('init', 'register_menu');

function add_language_prefix($menu_identifier) {
    global $post;
    $language_prefix = get_post_meta( $post->ID, '_locale', true );
    return $language_prefix . '_' . $menu_identifier;
}
add_filter('language_prefix_menu', 'add_language_prefix');

and in header I add this

<nav id="navigation" role="navigation" class="clearfix">

    <?php
      if(has_nav_menu('primary-menu')){
        wp_nav_menu(array(
          'theme_location' => apply_filters( 'language_prefix_menu', 'primary-menu'),
          'container' => 'menu-primary-container',
          'items_wrap'      => '<ul id="primary-menu" class="%2$s">%3$s</ul>',
          ));
      }
    ?>

good plugin Mr. Takayuki