Wetlands harbour a wide range of vital ecosystems. Hence, mapping wetlands is essential to conserving the ecosystems that depend on them. However, the physical nature of wetlands makes fieldwork difficult and potentially erroneous. This study used multispectral UAV aerial photography to map ten wetland plant species in the Fynbos Biome in the Steenbras Nature Reserve. We developed a methodology that used K-Nearest Neighbour (KNN), Support Vector Machine (SVM), and Random Forest (RF) machine learning algorithms to classify ten wetland plant species using the preselected bands and spectral indices. The study identified Normalized green red difference index (NGRDI), Red Green (RG) index, Green, Log Red Edge (LogRE), Normalized Difference Red-Edge (NDRE), Chlorophyll Index Red-Edge (CIRE), Green Ratio Vegetation Index (GRVI), Normalized Difference Water Index (NDWI), Green Normalized Difference Vegetation Index (GNDVI) and Red as pertinent bands and indices for classifying wetland plant species in the Proteaceae, Iridaceae, Restionaceae, Ericaceae, Asteraceae and Cyperaceae families. The classification had an overall accuracy of 87.4% and kappa accuracy of 0.85. Thus, the findings are pertinent to understanding the spectral characteristics of these endemic species. The study demonstrates the potential for UAV-based remote sensing of these endemic species.