Femtosecond filament-induced breakdown spectroscopy (FIBS) is an efficient approach in remote and in situ detection of a variety of trace elements, but it was recently discovered that the FIBS of water is strongly dependent on the large-bandgap semiconductor property of water, making the FIBS signals sensitive to laser ionization mechanisms. Here, we show that the sensitivity of the FIBS technique in monitoring metal elements in water can be efficiently improved by using chirped femtosecond laser pulses, but an asymmetric enhancement of the FIBS intensity is observed for the negatively and positively chirped pulses. We attribute the asymmetric enhancement to their different ionization rates of water, in which the energy of the photons participating in the ionization process in the front part of the negatively chirped pulse is higher than that in the positively chirped pulse. By optimizing the pulse chirp, we show that the limit of detection of the FIBS technique for metal elements in water, e.g., aluminum, can reach to the sub-ppm level, which is about one order of magnitude better than that by the transform-limited pulse. We further examine the FIBS spectra of several representative water samples including commercial mineral water, tap water, and lake water taken from two different environmental zones, i.e., a national park and a downtown business district (Changchun, China), from which remarkably different concentrations of Ca, Na, and K elements of these samples are obtained. Our results provide a possibility of using FIBS for direct and fast metal elemental analysis of water in different field environments.