The tea plants cultivated in acidic soils are vulnerable to excessive manganese (Mn), which increases the risk of Mn2+ toxicity to physiology and development. Mn-cation diffusion facilitator (CDF) family genes have been implicated in regulating Mn homeostasis and tolerance. However, the mechanism of Mn tolerance of tea plants in acidic environments is still unknown. In this study, we initially examined the phenotypic characteristics and Mn contents variability in different tissues of tea plants under various Mn concentration at pH 5 and 4. We observed that tea plants exhibited remarkably high Mn tolerance at pH 4, with Mn accumulation notably elevated in the aboveground tissues under pH 4 condition after 28-day treatment. We found the expression levels of Mn-CDF genes, had different subcellular localization, were tissue-specific and significantly induced by high Mn concentrations at pH 4 condition. Furthermore, the yeast complementation assays indicated that the heterologous expression of Mn-CDF genes restored the growth of a Mn2+ sensitive yeast strain, Δpmr1. Taken together, these results suggest that Mn-CDF family genes function as Mn transporters to participate in Mn tolerance in acidic environments. This study provides reference for further study on the mechanism of maintaining Mn homeostasis in tea plants under soil acidification.