This article presents a hardware-software implementation of a 3-axial milling machine with CNC and autonomous system of cooling of the cutting tool, and describes the electronic and mechanical components of this system. They include control boards of Arduino Mega and Arduino Uno, a control board for SH Ramps stepping motors, control boards for MP4988 stepping motors, stepping bipolar motors, fixture, conical and radial bearings, bonding wires and power supply units, and also the milling head (the engraver or a mini-drill) with a set of mills. Calculation of the number of pulses, necessary for rotation of the bipolar engine to the necessary degree, and also calculation of the relocation of a nut of support on a ladder are shown for one whole revolution. Electric circuits for connection of the components of the machine and the autonomous cooling system are also provided, as well as a program code for control of the relocation of the bipolar stepping motor and a formula of the tension transfer from the temperature sensors in Celsius degrees. For increasing the productivity of the machine the method of cooling of a cutting tool by means of Peltier element is offered. Cooling is carried out due to the temperature control in the cutting zone by a thermal sensor. Currents of the bipolar stepping motor are measured in operation during the starts, reverse action, constant turns and stops.