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Seascape variability may confound assessments on the effectiveness of no-take marine reserves (NTMRs) in conserving biodiversity. In most cases baseline data are lacking, resulting in evaluations of NTMR effectiveness being Control Impact (CI) assessments. Even with independent replicate areas among management zones, this approach can make it difficult to detect zone effects if seascape attributes, such as habitat structural complexity varies among experimental areas. To determine the importance of structural complexity in evaluations of NTMR effectiveness we performed assessments on the abundance of a targeted fish, yellowtail kingfish (Seriola lalandi), in the Lord Howe Island Marine Park (LHIMP). We compared assessments which did and did not account for structural complexity, quantified using high resolution multibeam bathymetry. Despite almost 3 times more S. lalandi in NTMRs, the traditional CI …