The Nibao gold deposit is one of the large gold deposits discovered in recent years in southwestern Guizhou. Previous studies mainly focus on the gold enrichment regularity and metallogenic process. However, the gold metallogenic model from the perspective of the three-dimensional gold enrichment regularity has not been studied. Methods: In this paper, a 3Dmine software was utilized to model the strata, faults and ore bodies of the Nibao gold deposit in three-dimensional visualization. Results: Results show that the ore body is stratified or occurs along the fault occurrence. Au mineralization mainly occurs in the strata of the 2nd and 1st Member of the Upper Permian Longtan Formation (P3l1 and P3l2), and is controlled by the tectonic alteration body (Sbt), fault F1, and the Erlongqiubao anticline. In addition, Au mineralization exhibits characteristics of patchy distribution and continuous band-shaped distribution, showing that Au content is high in local patches and decreases to the surrounding areas. Conclusions: Based on the ore-forming material source, ore fluid source, and characteristics of stratum lithology, faults and anticline, the fluid flow path formed by the deposit is obtained. The "S-type" and "fault + anticline axis" metallogenic models are proposed, which has reference significance for further metallogenic prediction of the Nibao gold deposit and similar deposits.