Based on the realities of development in philosophy and social sciences, the paper builds a “4+1” management system of “three-dimensional large social sciences” from the aspect of system science, according to the effect of the collection, integrity, optimization, interactive, dynamic management view, etc. The management system that is recognized as a combination of theory and practical work integrates the “large social sciences” and “three-dimensional” as a whole, which including a 4 subsystems and 1 auxiliary system. Wherein the target subsystem is the guidance, the structural subsystem is the core, the support subsystem is the key, the basic subsystem is the driving force and the auxiliary system is a efficient process. In addition, on the operating security of the management of “three-dimensional large social sciences”, it needs to actively explore and effectively apply the rule in order to make the system more mature, more standardized and improve the job security.