Panax notoginseng (P. notoginseng) is a traditional medicinal plant with high medicinal and economic values. The authenticity of P. notoginseng often determines its quality, and the quality of geographical indication (GI)-producing areas is usually superior to that of other producing areas, which are exploited by unscrupulous traders and affect the market order. The aim of this study was to characterize and identify the geographic origin of P. notoginseng using Fourier transform near-infrared (FT-NIR) spectroscopy, with rapid detection combined with multivariate analysis. The use of principal component analysis and correlation spectral analysis enabled the initial differential characterization and identification of P. notoginseng from different production areas. Then, random forest (RF) and support vector machine (SVM) models were established, and the results show that the results showed that the second-order derivative preprocessing and successive projection algorithm feature extraction achieved 100% classification correctness and the model training time is the shortest. Further constructing the image recognition model, synchronous two-dimensional correlation spectroscopy (2DCOS) image combined with residual convolutional neural network achieved accurate classification (accuracy of 100%) and did not require complex preprocessing and artificial feature extraction process, to maximize the avoidance of errors caused by human factors. The recognition results of the externally validated set showed that the image recognition method has a strong generalization ability and has a high potential for application in the identification of P. notoginseng production areas.