The national nature reserves in karst forests of Guangxi Zhuang Autonomous Region are the priority areas for biodiversity conservation of China. However, the funga in karst forests of Guangxi was still unclear and lack of related studies. In this study, Nonggang National Nature Reserve, Mulun National Nature Reserve and the Yachang Orchid National Nature Reserve were chosen as the representative areas to survey the funga in karst forests of Guangxi. In total, 777 species were found, belonging to 2 phyla, 6 classes, 21 orders, 97 families and 318 genera. The dominant families are Agaricaceae, Boletaceae, Hymenochaetaceae, Hymenogastraceae, Hypoxylaceae, Marasmiaceae, Mycenaceae, Omphalotaceae, Physalacriaceae, Polyporaceae and Psathyrellaceae, accounting for 11.34% of the total families and 42.21% of the total species. The dominant genera are Cookeina, Hypoxylon, Ophiocordyceps, Phillipsia, Sarcoscypha, Xylaria, Agaricus, Amanita, Auricularia, Marasmius, etc., accounting for 13.52% of the total genera and 43.76% of the total species. The representative families are Marasmiaceae, Mycenaceae, Phallaceae, Podoscyphaceae, Sarcoscyphaceae, Tremellaceae, Xylariaceae, Fomitopsidaceae, Gomphaceae, Hydnaceae and Lyophyllaceae. The representative genera are Cookeina, Phillipsia, Sarcoscypha, Xylaria, Chaetocalathus, Chlorophyllum, Cyptotrama, Echinochaete, Favolaschia, Favolus, Ganoderma, Gerronema, Hexagonia, Hymenochaete, Inocybe, Lactarius, Lactifluus, Lentinus, Leucocoprinus, Marasmius, Micropsalliota, Neofavolus, Oudermansiella, Podoscypha, Pterula, Roridomyces, Singerocybe, Termitomyces, Tetrapyrgos and Tropicoporus. This study is preliminary, providing a reference for the future further study of fungal diversity and fungal-plant interactions in karst forests of Guangxi.