As one of the most significant disturbance sources in the upper marine environment of the South China Sea, tropical cyclones (typhoons) serve as a typical research subject for investigating the energy transfer process between the ocean and atmosphere. Utilizing satellite remote sensing data and focusing on Typhoon Rey No. 22’s transit event in 2021, this study quantitatively analyzes typhoon-induced energy input through heat pumping and cold suction at both surface and subsurface levels of the ocean. Additionally, it explores the response characteristics and feedback mechanisms of sea surface temperature (SST) and chlorophyll-a concentration (Chl-a) in the South China Sea to typhoon events. The research results show that the SST variation along the typhoon track displayed an asymmetric pattern, with a more pronounced warming on the right side and a cold anomaly lasting for 3–5 days on the left side. The subsurface warm anomaly dominated on the right side, showing a maximum temperature difference of 1.54 °C, whereas Ekman suction-induced upwelling led to cooling effects both at the subsurface and surface level on the left side, resulting in a maximum temperature difference of −3.28 °C. During the typhoon event, there was a significant decrease in sea surface heat flux, reaching 323.36 W/m2, accompanied by corresponding changes in SST due to processes such as upwelling, seawater mixing, and air–sea heat transfer dynamics where anomalies arising from oceanic dynamic processes and exchange through sea surface heat flux contributed equally. Furthermore, strong suction-induced upwelling during the typhoon influenced chlorophyll concentration within the central and western regions of the South China Sea (13.5° N–16.5° N, 111° E–112.5° E), resulting in significant enhancement and reaching its peak value at approximately 0.65 mg/L. The average chlorophyll concentration increased by approximately 0.31 mg/L.