Connectivity enhances biodiversity, promotes ecosystem resilience and supports species persistence by maintaining ecological linkages between habitat patches. Mangroves form highly interconnected ecosystems, yet their connectivity is often overlooked in management frameworks. To address this gap, we developed a biophysical model to predict the dispersal of two important mangrove species in the central Great Barrier Reef, Rhizophora stylosa and Bruguiera gymnorhiza, and used network analysis to assess their connectivity. We mapped habitat patches based on five connectivity-driven management objectives and integrated this information with mangrove health data and impact assessments from the 2023 Southern Great Barrier Reef Mangrove and Saltmarsh Condition Survey to develop an urgency index for management prioritization. Our results highlight critical areas, such as replenishment sources and key connectivity corridors, where degraded mangrove habitats face significant climatic and anthropogenic threats. These insights offer valuable guidance for management strategies, particularly within the context of the Blue Carbon Initiative and the Emission Reduction Fund, which seek to reduce emissions and enhance carbon sequestration through ecosystem protection and restoration. Our findings provide a foundation for targeted management efforts, offering cost-effective strategies to enhance mangrove resilience against climate change and coastal development pressures.