Subsidiary QMS Registrar Exclusion

We recently purchased two new companies and we're planning on implementing our Quality Management System into their processes. However, we want a registrar exclusion and would like to treat them as a supplier. There will be overlap in our QMS software so I'm wondering what types of non conformances may arise with an external Auditor.

 

We were asked initially when we submitted for an audit if we wanted to include remote locations into our ISO certification. Our Quality Manager at the time agreed without knowing the financial burden. We have since pushed for a remote audit of that location. Since the subsidiary is going to be treated as a supplier we want to manage their quality program ourselves but there are some things we track in our QMS. I would like to prepare a response, if we are questioned, that the subsidiary is going to be handled as a supplier. They are under our control but the ROI isn't there to add them to our ISO certification.