The purpose of this project is to automate the process of drilling and thinning cranial windows in the skull of rodents such as rate or mice so that neural imaging is accurate and efficient. The solution accomplishes this through a CNC-style machine equipped with a Strong 202 micromotor. The drill was modified with a conductivity measurement circuit that detects when the drill has broken through the skull. The measurement ensures that the rodent’s brain is protected during the procedure. The user can place a prepared rodent on the device and select the desired procedure, window dimensions, and window shape via a control panel. After the three axes of the device are positioned to set the window origin, the automated procedure is performed. The device meets the requirements for size and functionality and can complete the procedure in less than ten minutes.