The chapter reviews and analyses the scientific inertia, prevailing in western fisheries management system, which affects some general assumptions: equilibrium in fishery ecosystems, large spawning stocks, which produces large new generations; and fishing activities as main and only factor, which have an impact on targeted stock size. Due to those subjective assumptions the author observes that the external environmental and social factors might be disregarded. It appear that the management applied only by systems output data – valid for all sorts of fishing systems – is taken as appropriate approach, which by any means appear to be a method that would not take into consideration many other issues in stock condition and sustainability. This system seems to be supported for years by the scientists, governmental institutions and the sector, in spite of the abundance of books, case studies and researches, published by independent experts, which are attempting to set real dimensions in the official fishery science and its consequent management.