This book constitutes the refereed proceedings of the Third International Conference on Future Data and Security Engineering, FDSE 2016, held in Can Tho City, Vietnam, in November 2016. The 27 revised full papers and 2 short papers presented were carefully reviewed and selected from 115 submissions. They have been organized in the following topical sections: Big Data Analytics and Cloud Data Management; Internet of Things and Applications; Security and Privacy Engineering; Data Protection and Data Hiding; Advances in Authentication and Data Access Control; Access Control in NoSQL and Big Data; Context-based Data Analysis and Applications; Emerging Data Management Systems and Applications.