The mobile phone is a typical 3C electronic product characterized by frequent replacement, multiple product specifications, high flexibility, high-frequency production line switching, and urgent delivery time during production. Therefore, the optimized design of the mobile phone production workshop is crucial. This paper takes the assembly process of a specific type of mobile phone assembly as the research object and adopts the heuristic balance method to combine the production procedures. Moreover, it considers the automation degree of the process and the demand for production line rhythm to carry out station division and working hours design for the assembly process. The advantages and disadvantages of the plug-and-play production line and unit production line architecture are integrated, aiming at the production line’s construction cost and unit area capacity. A hybrid workshop with a mixed combination of two types of production lines is designed and an optimization model of hybrid workshop design is established. The semi-physical simulation technology of digital twins is utilized to verify the proposed design scheme to achieve the balance optimization of the production line, improve production efficiency, and reduce production costs. This work provides a technical scheme for designing and optimizing large-scale mobile phone assembly workshops with multi-batch and high-frequency production changes.