Thank you for your review. ACL Manager is using the Joomla core ACL system for the permissions. This means you can set the permissions for the parts that Joomla added ACL. At the moment Joomla only supports permissions for the component "Module Manager", not for each of the modules, so you can't set the permissions for it in ACL Manager.
I am looking into the possibilities to add permission support for modules. Maybe via ACL Manager (not using the Joomla core method) or by contributing code to the Joomla project so you can set the permission per module.