The article deals with institutional problems of creation and functioning of an innovative infrastructure within the limits of National Innovation System (NIS) of Ukraine. Author analyzes more than ten years of formation of technological and scientific parks, business-incubators, the regional innovative centers; he exposes shortcomings of legal and organizational maintenance of an innovative infrastructure of Ukraine. The article provides basis for propositions, aimed at the improvements of development of a network of objects of an innovative infrastructure, in particular it’s industrial-technological and information analytical subsystems with use of programming and target oriented methods.