Exploiting the combination of algae and bacteria in High Rate Algal/Bacterial Ponds (HRABP) is an emerging approach for wastewater remediation and resource recovery. In this study, the advantage of adding a solid/liquid separation system to uncouple Hydraulic Retention Time (HRT) and Solid Retention Time (SRT) is explored and quantified. A long-term validated model for HRABP was run to simulate and optimize a system at large scale treating digestate. It is shown that by uncoupling HRT and SRT, adapting the liquid depth and the alkalinity content, the algae productivity increases from 9.0 to 14.5 g m−2 d−1 (for HRT = SRT in the range of 5 to 10 days) to 20.3 g m−2 d−1 (for HRT = 0.2 d and SRT = 2 d). Simulations pointed out that maximizing the algal productivity or the fraction of recovered nitrogen in the algal biomass are conflicting goals that are achieved under different operating conditions. Conditions maximising the algal productivity favour algae and heterotrophic bacteria while algae and nitrifying bacteria dominate the system under those conditions optimizing the efficiency of nitrogen recycling. Finally, increasing the influent alkalinity and adapting the water depth can boost the algal productivity without meeting conditions favourable to N2O emission, opening new perspectives for resource recovery through algal biomass valorisation.