Hydrothermal vein-type fluorite deposits are the most important metallogenic type of fluorite deposits in South China, most of which are closely related to granitoid in space; however, the genetic relationship between granitoid and fluorite mineralization remains controversial. The Shuanghuajiang fluorite deposit in northern Guangxi of South China is a typical vein-type fluorite deposit hosted in a granite pluton, with the orebodies occurring within brittle faults. Zircon U-Pb dating of the hosting Xiangcaoping granite yields an emplacement age of 228.04 ± 0.76 Ma (MSWD = 0.072). Fluorite Sm-Nd dating yields an isochron age of 185 ± 18 Ma. The new age data indicate that the fluorite deposit was precipitated significantly later than the emplacement of the hosting Xiangcaoping granite pluton. The fluorite and granite exhibit similar rare earth element (REE) patterns with negative Eu anomalies, suggesting that fluorine (F) was derived from the granite. The fluorite fluid inclusions show a homogeneous temperature mainly ranging between 165 °C and 180 °C. Salinity is typically less than 1% NaCl eqv, while the δ18OV-SMOW and δDV-SMOW values are between −5.2‰–−6.1‰ and −17.35‰–−23.9‰, respectively. These indicate that the ore-forming fluids were a NaCl-H2O system with medium-low temperature and low salinity, which is typical for meteoric water. Given the combined evidence of geochronology, REE, and fluid geochemistry, the mineralization of the Shuanghuajiang fluorite deposit is unrelated to magmatic-hydrothermal activity but achieved via hydrothermal circulation and leaching mechanisms. Our study presents a genetic relationship between the fluorite deposit and granitoids based on an example of northern Guangxi, providing a better understanding of the genesis of hydrothermal vein-type fluorite deposits in granitoids outcropping areas.