The vast majority of embedded system designs start with a processor-based system, using a microcontroller or microprocessor as the core element to predict and process the basic control tasks. This paper aims to increase the reliability of controlling a stepper motor by an embedded circuit, which generates four digital signals of pulse width modulation (PWM). The manager of this circuit is an embedded processor licensed from Microblaze, which sits within the FPGA architecture Virtex 5. This processor analyzes the parameters to execute the rotation under the best conditions (energy consumption, speed, precision, reliability). The communication with the PC takes place via the RS232 link to provide feedback. The autonomous processor generates an independent control frequency of the PC. The four digital signals of PWM are simulated on Xilinx's ISim interface and sent to the ULN2803 amplifier circuit to run the stepper motor.