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This paper introduces a model-based systems and embedded software engineering, workflow for the design of control systems. The interdisciplinary approach that is presented relies on an integrated set of tools that addresses the needs of various engineering groups, including system architecture, design, and validation. For each of these groups, a set of best practices has been established and targeted tools are proposed and integrated in a unique platform, thus allowing efficient communication between the various groups. In the initial stages of system design, including functional and architectural design, a SysML-based approach is proposed. This solution is the basis to develop systems that have to obey both functional and certification standards such as ARINC 653 (IMA) and ARP 4754A. Detailed system design typically requires modeling and simulation of each individual physical component of the system by various engineering groups (mechanical, electrical, etc.).