This document is related to implementation of Task 4.2 ‘Micro-beam upgrade at RBI Accelerator Facility’. The aim is to upgrade the two existing ion micro-beam stations by providing a precise motorized positioning system with the beam current control and Device Under Test (DUT) position monitor, as well as to demonstrate the sample cooling option for the ‘old’ micro-beam station. These upgrades require the necessity for remote control of the various parameters, such as the sample illumination and positioning in front of the ion beam, the ion beam focusing and current control, leading to the development of an integrated control system, using the home made SPECTOR DAQ and Experimental Physics and Industrial Control System (EPICS) which enables not only the fine setting of various options at the end-station but in addition, also the parallel control of accelerator parameters and logging.