Novel practices in the formation of students are encouraged to be multidisciplinary which in fact, allows them to better understand the behaviour of systems. This skill allows them to identify existing needs that impact multiple areas, both for an organization and to complement their entrepreneurial training. In this work, there is exposed a reference framework that arose to aid in the innovative design process among the manufacturing sector, it seeks to stretch the gap between conceptualization and implementation for engineering projects. Furthermore, the formation of the learners is enriched due to the breakdown of complex systems into entities as it gathers existing knowledge and provides structure to systematize the development process, allocate problems and provide feedback. Thus, design stages are detailed, engineering stages are described, and a toolbox is presented to guide designers into their task. The methodology has been tested under multidisciplinary projects in different time lapses, observing a positive impact in the formation of participants, as it guarantees the inclusion of desired attributes, documentation and milestones in the scenario being developed. In this article, there are described three case studies. Findings when developing using the methodology shows a structural, documented process followed by the designers, capable of recognizing the abilities acquired and reinforced skills, documented entities corresponding to what is developed at the end of the projects and time of deployment is enhanced.