The invention discloses a shuffled frog leaping-path reconnection-based production transportation co-scheduling method and system. The method is implemented by the following steps of 1, setting algorithm parameters; 2, generating initial populations; 3, calculating fitness values; 4, grouping the populations; 5, performing a local search on all groups, and updating individuals in the groups; 6, performing a global search on all the groups, and updating individuals in the groups; 7, integrating all the groups to obtain a new population; 8, performing a greedy path reconnection algorithm on population advantage solutions to obtain an updated population; and 9, judging an algorithm stop condition, and if the condition is met, stopping the algorithm, otherwise, returning to the step 3. According to the method and the system provided by the invention, the production processes of manufacturing enterprises can be optimized, and the manufacturing time span of products can be shortened, so that the optimization of the overall economic benefits is realized and the core competitive power of the enterprises is effectively improved.