Combination mechanism of conjugate cam and four-bar is a complex type of multi-body system, in which the coupling problems such as cam profile law, flexible deformation of connecting rods, and multiple joint clearance collision make it difficult to model and optimise its dynamics. Just as the beating-up mechanism of high-speed rapier looms for multi-layer weaving is a representative conjugate cam four-bar mechanism. In response to the current development of textile machinery in the direction of high-speed and precision, and in order to improve the work efficiency and operational accuracy of the conjugate cam four-bar beating-up mechanism, the following work is done for the purpose of taking into account the multi-joint clearance and the flexible rod based on the mechanism. Firstly, based on Kane's equation, a multi-body dynamic model with multiple clearances is established combined with clearance collision theory. Secondly, a dynamic model of a rigid-flexible coupling system with multiple revolute clearances is established using finite element method combined with modal synthesis technology. Subsequently, the variables separation method and mode superposition method are used to solve the dynamic equations of the coupled system. Finally, numerical examples are used to analyse the effects of clearance quantity, clearance size, mode truncation order, cam speed, and component material properties on the dynamic response and accuracy of the system. The results show that, in the rotational speed range of 600–800 rpm, the dynamic performance of the system is little affected by the speed; Through comparative analysis of multiple materials, it is found that selecting carbon fibre composite materials has the smallest impact on the motion accuracy of the system. In this paper, the clearance collision model, finite element model and rigid-flexible coupling dynamic model are integrated, which are applied to the cam-linkage combined multi-body mechanism, and the dynamic problems of the actual machine are analysed and solved.