The invention discloses an analytical method of multi-source spectrum fusion water quality. The method takes an ultraviolet/visible absorption spectrum signal and a multi-dimensional fluorescence emission spectrum signal of a water sample to be tested as input, and respectively adopts independent component pretreatment method to extract characteristic signals, remove interference information and obtain characteristic signals of the spectrums. According to the contribution of the characteristic signals of the spectrums to a water quality analyzing model, and aiming at avoiding information hiding, the combined characteristic signal number of the two types of spectrums is determined, the characteristic signals are combined into a spectrum characteristic signal federated data set, and the optimal spectrum configuration combination is solved. Based on an improved support vector machine algorithm, a Boosting method is adopted for modeling, and the optimal spectrum fusion water quality analyzing model is obtained by combining a plurality of modeling results. Based on the spectrum characteristic signal federated data set, the computation model is adopted to compute the comprehensive organic substance pollution index value of the water sample to be tested. The method has the remarkable advantages of high analyzing accuracy, high analysis speed, no pollution of chemical agent, simple operation and maintenance and the like.