In order to solve the problems of flexible process route and workshop scheduling scheme changes frequently in the multi-variety small batch production mode, a multiprocess route scheduling optimization model with carbon emissions and cost as the multi-objective was established. At the same time, it is considered to optimize under the existing machine tool conditions in the workshop, then the theory of logistics intensity between equipment is introduced into the model. By designing efficient constraints to ensure reasonable processing logic, and then applying multilayer coding genetic algorithm to solve the case. The optimization results under single-target and multi-target conditions are contrasted and analyzed, so as to guide enterprises to choose a reasonable scheduling plan, improve the carbon efficiency of the production line, and save costs.