With the rise of research on the integration of emergence theory and complex systems, value emergence has become a new model of value creation in green innovation ecosystems. Exploring the research status of green innovation ecosystems from the perspective of value emergence has become a research hotspot in the field of management science. Therefore, the purpose of this paper is to use bibliometric methods, explore the current research status of green innovation ecosystems from the perspective of value emergence, and, more importantly, provide a future direction for the integration of emergence theory into complex systems. In this paper, a search was conducted in the Web of Science and CNKI databases, with a time limit from 2009 to May 2023, and through further screening, 159 articles were collected, and CiteSpace software (CiteSpace.6.3.R1) was used for visualizing and exploring bibliometric networks. This study innovatively introduce the value emergence perspective in the context of green innovation ecosystems. The basic interaction, dynamic promotion, and feedback loop of value emergence are taken as the research framework, and the generation mechanism and dynamic evolution of the green innovation ecosystem are analyzed. Finally, three prospects for future research are presented: How do green innovation entities generate basic resources? How do digital transformation and dynamic capabilities promote emerging value? How do internal models and external identifiers promote feedback loops? This paper is highly important for promoting theoretical exploration in the field of green innovation research.