(Meta)sedimentary rock-hosted gold (Au) deposits are globally important Au resources, of which ore genesis and mineral exploration have been attracted considerable attention. However, the precise dating of Au mineralization of those Au deposits remains challenging due to the absence of suitable dating minerals, thus impeding a comprehensive understanding of their genesis. The Kangjiawan Au deposit, situated in the southern Hunan Province, South China, is one of representative (meta)sedimentary rock-hosted Au deposits. Due to the lack of mineralization age, the genesis of Kangjiawan Au deposit is still a matter of debate. Here we report the data of in situ calcite U-Pb dating, in situ trace elements and sulfur isotope analysis of pyrite, to further constrain the mineralization timing and the sources of ore-forming materials of the Kangjiawan Au deposit. Based on the detailed field investigation and petrographic observations, three mineralization stages have been identified: pyrite (Py1) + quartz (Stage I), gold-bearing pyrite (Py2) + polymetallic sulfides + quartz + calcite (Stage II), and gold-bearing pyrite (Py3) + calcite (Stage III). The results of mineralogical and trace elemental analyses indicate that Au are mainly hosted in Py2 (average 14.19 ppm) and Py3 (average 4.80 ppm), primarily as the form of “invisible gold”. In situ LA-ICP-MS U-Pb dating on calcite intergrowth with the gold-bearing pyrite (Py3) yields a Tera-Wasserburg lower intercept age of 151.7 ± 5.4 Ma. This age is well consistent with the published zircon U-Pb age (158.3 ± 1.2 Ma) of the nearby Shuikoushan granodiorite, the molybdenite Re-Os age (157.8 ± 1.4 Ma) of the Laoyachao skarn Pb-Zn deposit in the Shuikoushan ore field, and the garnet U-Pb age (159.1 ± 1.9 Ma) of the skarn Pb-Zn ore in depth of the Kangjiawan Au deposit. These suggested that the Au mineralization of the Kangjiawan deposit is coeval with the emplacement of the Shuikoushan granodiorite and Laoyachao Pb-Zn mineralization, which are important parts of the large-scale Middle-Late Jurassic Cu-Au-Pb-Zn Metallogenic event of the Qin-Hang Metallogenic Belt, South China. In addition, trace elemental contents, such as relative low Co, Ni, and Se (i.e., <0.01 to 100 ppm), and a narrow δ34S range of −2.94 ‰ ∼ +3.03 ‰ of pyrite, indicate that ore-forming materials were mainly derived from granitic magmas. Integrated with previous studies, it is suggested that the Au mineralization in the Kangjiawan deposit is genetically associated with the late Jurassic granitic magmatism and is probably as the distal products of the deep-seated concealed granitic intrusions and related proximal skarn Pb-Zn ore.