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Conservation decisions are invariably made with incomplete data on species' distributions, habitats, and threats, but frameworks for allocating conservation investments rarely account for missing data. We examined how explicit consideration of missing data can boost return on investment in ecosystem restoration, focusing on the challenge of restoring aquatic ecosystem connectivity by removing dams and road crossings from rivers. A novel way of integrating the presence of unmapped barriers into a barrier optimization model was developed and applied to the U.S. state of Maine to maximize expected habitat gain for migratory fish. Failing to account for unmapped barriers during prioritization led to nearly 50% lower habitat gain than was anticipated using a conventional barrier optimization approach. Explicitly acknowledging that data are incomplete during project selection, however, boosted expected habitat gains by 20-273% on average, depending on the true number of unmapped barriers. Importantly, these gains occurred without additional data. Simply acknowledging that some barriers were unmapped, regardless of their precise number and location, improved conservation outcomes. Given incomplete data on ecosystems worldwide, our results demonstrate the value of accounting for data shortcomings during project selection., (© 2023 The Authors. Conservation Biology published by Wiley Periodicals LLC on behalf of Society for Conservation Biology.)