Due to the differences in ore feeds and stacking procedures, segregated pore networks are commonly observed in industrial heap leaching operations, which strongly affect the pore-scale fluid flow and the resulting metal leaching efficiency. Three segregated models, namely, the agglomeration model or AM with intra-particle pores, the crushed ore model or COM with inter-particle pores and the mixed segregated model or MSM with both intra- and inter-particle pores, are defined in this work. The segregated pore network in the MSM consists of agglomerates and crushed particles. The models were obtained by performing micro-computed tomography scanning experiments in packed beds followed by image processing algorithms. Several fluid flow-related parameters were quantified to understand the effects of segregated pore networks on fluid flow in heap leaching. The isolated and connected pores co-exist in porous ore heaps, and the latter determines heap hydrodynamics. The number of connected pores in the AM is higher than in the COM. However, the connected pores with too small pore throats are very slow in fluid transfer by capillarity, resulting in stagnant regions in ore beds. A smaller tortuosity value was also observed in the COM, resulting in fast-flowing preferential fluid flow paths. These are unfavourable to yield uniform fluid flow distributions in industrial heaps. The results of this work suggest the prerequisites for improving fluid flow distribution in heaps, including well-organised heap construction procedures, controlling the particle size distribution and large-scale studies coupled with non-invasive imaging and flow simulations.