The aim of this study was to evaluate, on a preliminary basis, the ability of multivariate techniques to predict the antioxidant activity of selected Stachys and Betonica species, based on chromatographic data. The methanol extracts of six Stachys species and ten Betonica species were analyzed using reversed-phase high-performance liquid chromatography (RP-HPLC) to obtain their chromatographic profiles. The phytochemical similarity of the samples was assessed using a selected chemometric method (principal component analysis (PCA) and hierarchical cluster analysis (HCA)). The antioxidant activity of the studied extracts (DPPH with 2,2-diphenyl-1-picrylhydrazyl reagent and FRAP—ferric reducing antioxidant power) was determined using a spectrophotometric technique. A multivariate PLS model was then used to predict the antioxidant activity of the methanolic extracts of Stachys and Betonica species based on their RP-HPLC fingerprints. The two obtained PLS models proved useful for predicting the biological activity of the tested extracts. High correlation coefficients (DPPH: R2 = 0.9963; FRAP: R2 = 0.9895) confirmed the reliability of the PLS prediction model. The results confirmed the effectiveness of combining qualitative and quantitative chromatographic fingerprinting methods with antioxidant activity testing and chemometric analysis, demonstrating that extracts from Stachys and Betonica are a rich source of bioactive substances with antioxidant properties.