Nowadays, unmanned aerial vehicles (UAVs) play a pivotal role in agricultural production. In scenarios involving the release of particulate materials, the precision of quantity monitors for the storage tank of UAVs directly impacts its operational accuracy. Therefore, this paper introduces a novel noise-mitigation design for agricultural UAVs’ quantity monitors, utilizing differential weighing sensors. The design effectively addresses three primary noise sources: sensor-intrinsic noise, vibration noise, and weight-loading uncertainty. Additionally, two comprehensive data processing methods are proposed for noise reduction: the first combines the Butterworth low-pass filter, the Kalman filter, and the moving average filter (BKM), while the second integrates the Least Mean Squares (LMS) adaptive filter, the Kalman filter, and the moving average filter (LKM). Rigorous data processing has been conducted, and the monitor’s performance has been assessed in three UAV typical states: static, hovering, and flighting. Specifically, compared to the BKM, the LKM’s maximum relative error ranges between 1.24% and 2.74%, with an average relative error of 0.31%~0.58% when the UAV was in a hovering state. In flight mode, the LKM’s maximum relative error varies from 1.68% to 10.06%, while the average relative error ranges between 0.74% and 2.54%. Furthermore, LKM can effectively suppress noise interference near 75 Hz and 150 Hz. The results reveal that the LKM technology demonstrated superior adaptability to noise and effectively mitigates its impact in the quantity monitoring for storage tank of agricultural UAVs.