High photovoltaic penetration in a power system has significantly challenged its safety and economic operation. To use the complementary characteristics of various renewable energy sources (RESs) fully, a novel hierarchical scheduling control (HSC) method is presented to accommodate the variability and uncertainty of a cascade hydro-PV-pumped storage (CH-PV-PS) generation system. Considering the optimization functions and execution requirements of the CH-PV-PS system, the HSC method is divided into two layers: the dynamic optimization layer and the static optimization layer. The static optimization layer focuses on the economy of the CH-PV-PS system, and the dynamic optimization layer focuses on the safety of the CH-PV-PS system. In the first layer, that is, the static optimization layer, the objectives of the day-ahead and hour-ahead schedules are established, and a heuristic algorithm is combined with a linear programming algorithm to optimize the energy allocation. Considering the uncertainty of the PV power output and hour-ahead load, a real-time schedule is established in the second layer; that is, in the second layer, the dynamic optimization layer, real-time scheduling and prediction of active output are established. Model predictive control methods are introduced to correct for prediction bias at different time scales in order to fully utilize the control capability of hydropower generation. A CH-PV-PS real-world system in Southwest China is chosen as a case study. In the three scenarios, where only PV fluctuations are considered, the simulation results reveal that, compared with the traditional open-loop optimized and hierarchical open-loop optimization methods, the HSC method reduces the average relative deviation of PV and increases the system economics. After a large amount of RESs are connected to the power grid, the HSC method provides a solution for improving the consumption of RESs.