A first principles model may be used to simulate a batch process, and the first principles model may be used to configure a multiple-input/multiple-output control routine for controlling the batch process. The first principles model may generate estimates of batch parameters that cannot, or are not, measured during operation of the actual batch process. An example of such a parameter may be a rate of change of a component (e.g., a production rate, a cell growth rate, etc.) of the batch process. The first principles model and the configured multiple-input/multiple-output control routine may be used to facilitate control of the batch process.