Intellectual property management as an integral element of the effective sustainable development of an organization and ensuring its financial security by increasing the cost of capital in an innovative economy is of particular relevance. Taking into account the complexity of organizing the intellectual property management process, as well as insufficiently developed theoretical and methodological approaches and methodological tools, the purpose of the study is to consider the implementation of the intellectual property management process in a company, justify the need for system management and its impact on the effectiveness of innovation. As a result of the study, the authors confirmed that the issues of intellectual property management are related to the theory of sustainable development, since innovative development can significantly save resources, and the organization's economic security strategy, since the organization of effective intellectual property management allows organizations to reduce strategic and financial risks. The effectiveness of innovations largely depends on the conditions for their implementation in the company. Optimal conditions are provided by the intellectual property management system. The scientific novelty of the research is presented in the form of updating and increasing scientific knowledge and methodological recommendations for the implementation of the intellectual property system in an organization. Based on the principles of the process-system approach and modeling methods, the authors propose a model and methodological tools for implementing the intellectual property system at the organization level. The system, in turn, is presented as a process, with the allocation of stages and a description of the content of each stage. The proposed model can be used in the practical activities of the company.