Field effect transistor (FET)-based biosensors can accurately quantify changes in weak signals and show excellent performance advantages in the detection of trace biological disease markers. Biological functionalization (biofunctionalization) is an important factor in the fabrication of FET-based biosensors, which directly affects the performance of the biosensor. However, little attention from researchers has been paid to biofunctionalization, which results in uneven performance of biosensors. Herein, MoS2-based FET biosensors are designed and fabricated using four different biofunctionalization methods. The most suitable biofunctionalization method is obtained by comparing the sensing performances of different functionalized MoS2-based FET biosensors. Moreover, the working mechanism of the optimized biofunctionalization method is explored. Besides, the biofunctionalization-optimized MoS2-based FET biosensor exhibits excellent sensing performance, achieving sensitive detection of Tau protein in the concentration range of 10−2–103 pg/mL. This study provides a universal and effective strategy for the biofunctionalization optimization of two-dimensional materials-based FET biosensors.