Possible approaches to building the conceptual and mathematical models to the measurement of social capital of the University are discussed in this paper. We characterize the structure of social capital, determine the factors affecting the level of social capital, identify indicators of its estimation, formulate the problem of predict the effectiveness of the University through the organization of measurement by these indicators. The problems associated with the measurement of social capital are described. Discusses the choice of the mathematical model of the organization of estimation of social capital in the context of determining the confidence interval of the permissible values of the effectiveness of the University as a basis for making management decisions. Examines the complexity of the task of estimation of social capital at the University, posit that the decision these problems by standard methods is very difficult. For the solution of this task offers to use the method of sign-perturbed sums (SPS). This paper develops the previous ideas of the authors on the use of randomized algorithms in socio-humanitarian researches, in which the traditional assumptions about of stochastic character, independence and the symmetry of noise of the observations are often made unreasonably.