Problem statement.The predominance of effective innovation industries, where scientific developments are the main driving force of the economy is a distinguisher of the manufacturing process in a postindustrial society. Estimate for management efficiency of a high-tech enterprise in the conditions of active innovation activity becomes relevant.The purpose.The article consider military-industrial complex enterprises of the Russian Federation, which work in constantly changing conditions of resource, legislative or other restrictions. The manufacturing of small-scale products with a given quality and reliability with limited financial resources is one of the features of such enterprises. The article examine the methodology for analyzing the enterprise performance indicators that produces special-purpose products and works in accordance with the requirements [1] of manufacturing and usage of serial products.Results.The article considered the estimate options for complex performance indicator of the product quality and reliability management system, evaluating the effectiveness of the input control, [serial products] usage and manufacturing processes.Practical relevance.The proposed method allows identifying the maximum number of product defects, with a glance of the practical development of the technology for their creation and the manufacturing process organizational and technical features.