A control system for a gas turbine engine, a method for controlling a gas turbine engine, and a gas turbine engine are disclosed. The control system may include a hybrid model predictive control (HMPC) module, the HMPC module receiving power goals and operability limits and determining a multi-variable control command for the gas turbine engine, the multi-variable control command determined using the power goals, the operability limits, actuator goals, sensor signals, and synthesis signals. The control system may further include system sensors for determining the sensor signals and a non-linear engine model for estimating corrected speed signals and synthesis signals using the sensor signals, the synthesis signals including an estimated stall margin remaining. The control system may further include a goal generation module for determining actuator goals for the HMPC module using the corrected speed signals and an actuator for controlling the gas turbine engine based on the multivariable control command.