This book LNCS 16213 constitutes the refereed proceedings of the 29th International Conference on Enterprise Design, Operations, and Computing, EDOC 2025, held in Lisbon, Portugal, during September 9-12, 2025. The 19 full papers were carefully reviewed and seleced from 73 submissions. They were categorized under topical sections as follows: 1) Enterprise Architecture 2) Business Process Management 3) Business Processes & Decision-Making 4) Modeling and Modeling Methods 5) Ontologies 6) Artificial Intelligence and Agents