Climate change is expected to affect hydrologic and thermal regimes of river ecosystems. During dry periods when river flows decrease and water temperatures increase, the hyporheic zone (HZ) can provide a refuge to surface aquatic invertebrates and enhance the resilience capacity of riverine ecosystems. However, shifts from up- to downwelling flow conditions in the HZ could jeopardise this capacity. Using laboratory mesocosms and high-resolution fibre-optic distributed temperature sensing, we explored the combined effects of five different increased surface water temperature treatments (from 15 to 27°C at 3°C intervals) and the direction of water exchange on the ability of Gammarus pulex (Crustacea: Amphipoda: Gammaridae) to migrate into the HZ as a response to warming. We determined the survival rates of this ubiquitous hyporheic dweller and its rates of consumption of alder (Alnus glutinosa; Betulaceae) leaf litter in the HZ. Results showed that at increasing surface water temperature, leaf-litter breakdown was observed at a greater depth in the sediments under downwelling flow conditions, that is, G. pulex migrated deeper into the HZ compared with upwelling conditions, resulting in greater survival rates (64 ± 11 vs. 44 ± 10%). However, under both upwelling and downwelling conditions, we found evidence for potential use of the hyporheic zone as a thermal refuge for G. pulex. Below sediment depths of 25 cm, temperatures remained low (