Industrial automation systems normally consist of four different hierarchy levels: planning, scheduling, real-time optimization, and control. At the planning level, the goal is to compute an optimal production plan that minimizes the production cost while meeting process constraints. The planning model is typically formulated as a mixed integer nonlinear programming (MINLP), which is hard to solve to global optimality due to nonconvexity and large dimensionality attributes. Uncertainty in component qualities in gasoline blending due to measurement errors and variation in upstream processes may lead to off-specification products which require re-blending. Uncertainty in product demands may lead to a suboptimal solution and fail in capturing some potential profit due to shortage in products supply. While incorporating process uncertainties is essential to reducing the production cost and increasing profitability, it comes with the disadvantage of increasing the complexity of the MINLP planning model. The key contribution in the planning level is to employ the inventory pinch decomposition method to consider uncertainty in components qualities and products demands to reduce the production cost and increase profitability of the gasoline blend application. At the control level, the goal is to ensure desired operation conditions by meeting process setpoints, ensure process safety, and avoid process failures. Model predictive control (MPC) is an advanced control strategy that utilizes a dynamic model of the process to predict future process dynamic behavior over a time horizon. The effectiveness of the MPC relies heavily on the availability of a reasonably accurate process model. The key contributions in the control level are: (1) investigate the use of different system identification methods for the purpose of developing a dynamic model for high-purity distillation column, which is a highly nonlinear process. (2) Develop a novel hybrid based MPC to improve the control of the column and achieve flooding-free control. / Dissertation / Doctor of Philosophy (PhD) / The operation of a chemical process involves many decisions which are normally distributed into levels referred to as process automation hierarchy. The process automation hierarchy levels are planning, scheduling, real-time optimization, and control. This thesis addresses two of the levels in the process automation hierarchy, which are planning and control. At the planning level, the objective is to ensure optimal utilization of raw materials and equipment to reduce production cost. At the control level, the objective is to meet and follow process setpoints determined by the real-time optimization level. The main goals of the thesis are: (1) develop an efficient algorithm to solve a large-scale planning problem that incorporates uncertainties in components qualities and products demands to reduce the production cost and maximize profit for gasoline blending application. (2) Develop a novel hybrid-based model predictive control to improve the control strategy of an industrial distillation column that faces flooding issues.