High-resolution topographic and stratigraphic datasets have been increasing applied in active fault investigation and seismic hazard assessment. There is a need for the comprehensive analysis of active faults on the basis of the correlating geomorphologic features and stratigraphic data. The integration of TLS and GPR was adopted to characterize the 3D geometry of the fault on the Maoyaba segment of Litang fault. The TLS was used to obtain the high-resolution topographic data for establishing the 3D surficial model of the fault. The 2D 250 MHz and 500 MHz GPR profiles were carried out to image the shallow geometry of the fault along four survey lines. In addition, the 3D GPR survey was performed by ten 2D 500 MHz GPR profiles with 1 m spacing. From the 2D and 3D GPR results, a wedge-shaped deformation zone of the electromagnetic wave was clearly found on the GPR profiles, and it was considered to be the main fault zone with a small graben structure. Three faults were identified on the main fault zone, and fault F1 and F3 were the boundary faults, while the fault F2 was the secondary fault. The subsurface geometry of the fault on the GPR interpreted results is consistent with the geomorphologic features of the TLS-derived data, and it indicates that the Maoyaba fault is a typical, normal fault. For reducing the environmental disruption and economic losses, GPR was the most optimal method for detecting the subsurface structures of active faults in the Litang fault with a non-destructive and cost-effective fashion. The 3D surface and subsurface geometry of the fault was interpreted from the integrated data of TLS and GPR. The fusion data also offers the chance for the subsurface structures of active faults on the GPR profiles to be better understood with its corresponding superficial features. The study results demonstrate that the integration of TLS and GPR has the capability to obtain the high-resolution micro geomorphology and shallow geometry of active faults on the Maoyaba segment of the Litang fault, and it also provides a future prospect for the integration of TLS and GPR, and is valuable for active fault investigation and seismic hazard assessment, especially in the Qinghai-Tibet Plateau area.