Metapopulation structure is typically thought to increase regional species abundance, promote population persistence, and aid in the re-establishment of extirpated populations. However, the underlying theoretical models tended to assume high productivity, making the conservation benefit of metapopulation structure uncertain for endangered species with low productivity. We simulated population assemblages (N = 50) of diadromous fishes under high to low productivity scenarios to explicitly assess how straying (movement from natal to non-natal rivers) contributes to changes in species abundance and extinction risk. The population aggregation exhibited greater total abundance from source–sink dynamics and also exhibited the rescue effect when productivity remained moderately high. However, straying did not ensure persistence of nonviable populations or enable population re-establishment when productivity was low. These results were robust to a wide range of alternate spatial and life-history parameterizations of the simulation model. Relative to a real-world population aggregation of endangered Atlantic salmon (Salmo salar), our results would argue for a shift in remediation priorities to prevent extinction. Although there is strong evolutionary justification for maintaining widespread distributions of endangered diadromous species, the immediate numerical consequences of this approach may hinder recovery.