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Facing the growing high data rate and large communication capacity demands, optical communications are widely recognized to be used to implement satellite communications. For a space-based optical backbone network, an appropriately designed protocol stack is important. In this paper, we propose a protocol stack that is suitable for a space-based optical backbone network. Following this, we then used software to simulate this stack, built a hardware platform to test it, and finally, analyzed the results. The results showed that the proposed protocol stack was well designed to provide efficient control and management of the space-based optical backbone network. It could improve management efficiency by collecting resources and automatically calculating and building route paths. It could also facilitate data forwarding in intermediate satellite nodes with limited source and power, by using an advanced orbiting systems (AOS) frame switching scheme to avoid unnecessary processes, such as unpacking, upper-layer processing and repacking for passing services. The protocol stack could also support the use of unidirectional links to improve the link resource utilization. Finally, it could also provide transparent transmission for different kinds of services.