El Niño is now a focal point for global climate change research, but its influence on the Western Pacific is still uncertain. Taiwan Strait is an important pathway, which connects the South China Sea and the East China Sea, and is strongly influenced by the monsoon. Generally, in winter, the strong winter monsoon brings the cold and nutrient-rich Changjiang Diluted Water¡]CDW¡^southward. While during the El Niño event, because of the weakened south wind in northern Taiwan, more cold CDW moves southward, and hence the decreased seawater temperature in spring and fall. The trend is opposite in summer. There is a high salinity signal in the seas outside of Hsin-Chu, suggesting sea water coming from the Kuroshio, which has circumvented the northeast tip of Taiwan. Meanwhile, there is a front which separates this Kuroshio water and CDW. During the El Niño, the front moves eastward, especially in summer. The salinity east of the front decreases gradually from spring to winter water, the center of upwelling located at the eastern side of the front in spring, and at or near the front from summer to winter. Furthermore, The N/P ratio of the northern Taiwan Strait water became higher after the Three Gorges Dam (TGD) became operational. The nitrous oxide (N2O) is a long-lived greenhouse gas. Unfortunately, in Taiwan, there are few data about N2O emission from rivers, lakes and coastal areas. This research also studies the N2O distribution in natural waters around Taiwan. The average surface water concentration and sea to air flux in the Taiwan Strait¡]7.81¡Ó1.28nM¡F0.28¡Ó0.38£gmol/m2/hr¡^is higher than in the South China Sea¡]SCS¡F7.55¡Ó2.45 nM¡F0.21¡Ó0.27£gmol/m2/hr¡^and the West Philippine Sea¡]WPS¡F5.3¡Ó0.62nM¡F-0.20¡Ó0.25£gmol/m2/hr¡^, which displays a rare sink signal in the world oceans. There is an N2O maximum observed around 1000m in the WPS, and another shollower one around 700m in the SCS, presumably because of the intenive upwelling and vertical mixing in the SCS basin. There are some rather high N2O concentrations (N2O>30nM) in the SCS, observed near the continental slope. We assume that these are released from sediments on the continental slope. Although the sea-to-air flux of N2O is much lower than the flux of CO2, N2O emission in the SCS contributes more than two times the greenhouse effect than CO2 does. Besides, The N2O concentration during El Niño is lower than usual, probably due to a smaller amount of the CDW. Finally, the average N2O concentrations of river and submarine groundwater discharge in Taiwan are about 32.3¡Ó43.3nM and 9.72¡Ó13.2 nM, respectively.