Distributed high-lift system is used to improve aircraft lift characteristic at low speed and it has a major influence on economics and safety of transport aircraft configuration. State-of-the-art distributed high-lift system is a complex mechatronics integrated subsystem and often uses “concentrated control-drive & distributed actuation” architecture. In engineering practice, system architecture design process is highly iterative for the reason of uncertain and changing input. It is also difficulty to assess system architecture and predict system performance. The objective of research is offering a novel knowledge-based system architecture design criterion and system assessment criterion from engineering perspective, other factors with great influences on system architecture design and selection also be discussed synchronously. In order to illustrate system running and execution logic, the article exhibits high-lift system application software’s structure and procedure to show system working principle at different modes. Furthermore, according to flap actuation system simulation model building and mechanical transmission error calculation, the article provides a systematic mechanical performance calculation method.