Recently, the aeromagnetic survey with Unmanned Aerial Vehicle (UAV) for mineral exploration has become ubiquitous. They can fly at a lower speed, lower altitude, need fewer crew members, and are cost-effective compared to traditional manned aeromagnetic. With the development of drones, magnetometers were also developed, which reduced the cost, weight, size, and energy consumption of these sensors. One of these sensors is the magneto-inductive magnetometer. This study investigates the integration of the UAV with a magneto-inductive sensor. We have performed an aeromagnetic survey along with six profiles and compared them with the terrestrial magnetic survey using a proton precision magnetometer. We show that the magneto-inductive sensor can sense Earth’s magnetic field’s change up to less than 60 nT. These results show the promising potential of using the UAV equipped with the magnetoinductive sensor to prospect the magnetic ore deposits.