Cyclic storage system (CSS) is defined as physically interconnected and operationally integrated surface water and groundwater subsystems with full direct interactions between the subsystems. Mathematical development and implementation of a CSS model is very complex and all previous works are fully case dependent with a minimum possibility of generalization. This article proposes an integrated development environment called CSSDev, which assists researchers to create and design object-oriented CSS models more easily. Using CSSDev, researchers may skip regeneration of repetitive simulation codes for common elements of a CSS. CSSDev employs NSGA-II to optimally select the design parameters of the models. Two objective functions of the optimization problem are system's total costs and total loss associated with the development alternatives. A real-world large-scale CSS has been modeled and optimized to illustrate the performance of CSSDev. The final Pareto-front is presented and two selected solutions from the set of optimal non-dominated ones are evaluated and discussed.