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Approximately 2,362 ±289 km2 of seagrass meadows were mapped in the waters of Hervey Bay and Great Sandy Strait between 6 and 14 December 1998. This was the first comprehensive survey of the Great Sandy region. The survey involved examination of 1,104 field validation points and identified 174 individual meadows. Seagrass extended from the intertidal and shallow subtidal waters to a depth of 32m. Seven species of seagrass were identified (Cymodocea serrulata, Halodule uninervis, Syringodium isoetifolium, Halophila decipiens, Halophila ovalis, Halophila spinulosa and Zostera muelleri) within 22 seagrass meadow/community types. Mapping survey methodologies followed standardised global seagrass research methods for intertidal, shallow subtidal (2‐10m depth) and deep waters (>10m) using both in situ and remote assessments. View the original metadata record at https://doi.org/10.1594/PANGAEA.876714.