Quantifying groundwater recharge in semi-arid regions is crucial for water resource management and ensuring food security. This study estimates groundwater recharge from the water table fluctuation (WTF) and tritium tracer methods and examines the impact of irrigated agriculture in Telangana, which experiences semi-arid climatic conditions. The mean recharge over the study period was 176 mm using the Water Table Fluctuation (WTF) method and 118 mm using the tritium tracer method. However, it experiences a significant decrease during drought years. Our analysis reveals that approximately 15% of the average annual precipitation (960 mm), subject to interannual variations, contributes to natural recharge. The contribution exhibits significant spatiotemporal variations influenced by both natural and anthropogenic factors. The Empirical Orthogonal Function (EOF) analyses show a significantly high correlation (0.80) between precipitation and groundwater storage. Since the hard rock crystalline aquifers comprises about 85% of the study area, the storage capacity of saprolite layers and developed fracture systems primarily limit recharge. Despite ample rainfall in two consecutive years, the recharge is significantly low in the second year. However, a drought in the previous year, followed by favorable rainfall in the current year, tends to increase recharge. Over the past three decades, the area irrigated with groundwater has increased 2.5 times, which has affected groundwater recharge rates. This study provides insights into groundwater dynamics and its association with climate variability and human activities, especially in the crystalline hard rock aquifer systems under semi-arid conditions. Understanding the interplay between hydrogeological, climate, and anthropogenic factors is crucial for implementing effective water conservation measures in water stress areas and formulating regional groundwater management policies.