I have since found out one way of solving this issue. It is to edit wp-admin\includes\nav-menu.php. Find this code:
<select id="edit-menu-item-target-<?php echo $item_id; ?>" class="widefat edit-menu-item-target" name="menu-item-target[<?php echo $item_id; ?>]">
<option value="" <?php selected( $item->target, ''); ?>><?php _e('Same window or tab'); ?></option>
<option value="_blank" <?php selected( $item->target, '_blank'); ?>><?php _e('New window or tab'); ?></option>
</select>
This is the code that asks the user to select the link target options. To add an option for "_top" you can add this code before the </select>
<option value="_top" <?php selected( $item->target, '_top'); ?>><?php _e('Top window-break iframe'); ?></option>
When you create the WordPress menu that will appear on your Facebook iframe page, you can choose "Top window-break iframe." This is the perfect solution when you want to provide an obvious link to the Facebook wall or other tabs on your Facebook page, because without the target="_top" code Facebook will not let the link work.
Of course, you would have to add this code every time you update WordPress. So I need to write a plugin for this. (That day will come...)