New and/or alternative approaches to physical plant performance control that can account for the health of the physical plant. A physical plant may be controlled by configurable controller, which may further comprise a low level controller associated with a higher level controller such as an Engine Control Unit (ECU). The ECU uses modeling to calculate an estimated operating value of a first parameter in the physical plant, and also uses a sensor to measure an operating value of the first parameter. The measured and modeled values are compared to determine the state of health (SOH) of the physical plant or a component thereof. The SOH may be stored, transmitted, or used to modify one or more control values used by the low level controller.