Within the Horizon 2020 Agile 4.0 research program several studies are performed to integrate certification disciplines in a Multidisciplinary Design Analysis and Optimization environment. Inside this framework, some tools have been developed to formalize and help the integration. The present paper describes the integration of external noise, minimum performance, and safety verification within a multidisciplinary design of a small regional aircraft with electrified on-board systems. The integration is carried out using the Operational Collaborative Environment developed within the project and able to exploit the MBSE technology. Starting from the definition of a possible architecture of the virtual certification process for noise, performance and safety, the necessary disciplinary tools are identified together with possible multidisciplinary design problems. The results are then propagated up to the initial requirements as means of future validation.