Observations of rift and rifted margin architecture suggest that significant spatial and temporal structural heterogeneity develops during the multiphase evolution of continental rifting. Inheritance is often invoked to explain this heterogeneity, such as preexisting anisotropies in rock composition, rheology, and deformation. Here, we use high‐resolution 3‐D thermal‐mechanical numerical models of continental extension to demonstrate that rift‐parallel heterogeneity may develop solely through fault network evolution during the transition from distributed to localized deformation. In our models, the initial phase of distributed normal faulting is seeded through randomized initial strength perturbations in an otherwise laterally homogeneous lithosphere extending at a constant rate. Continued extension localizes deformation onto lithosphere‐scale faults, which are laterally offset by tens of km and discontinuous along‐strike. These results demonstrate that rift‐ and margin‐parallel heterogeneity of large‐scale fault patterns may in‐part be a natural byproduct of fault network coalescence. Key Points Distributed normal fault networks develop from randomized initial strength perturbations Rifted margin heterogeneity develops through fault network localization