In much of the western Cordillera of North America, the geologic framework of crustal structure generated in the Mesozoic leaves an imprint on later plutonic emplacement, subsequent structural setting, and present landscape morphology. The Merrimac plutons in the northern Sierra Nevada (California, USA) are a good example of the influence of pre-existing structure at a larger scale. This paper updates and refines earlier studies of the Merrimac plutons, with the addition of analysis of gravity and magnetic data and new 206Pb/238U zircon dates. The gravity and magnetic data not only confirm the presence of two different neighboring plutons, but also (1) support the presence of a third pluton, (2) refine the nature of the contact between the Merrimac plutons as being structurally controlled, and (3) estimate the depth extent of the plutons to be ~4–5 km. The zircon 206Pb/238U dates indicate that the two main plutons have statistically different crystallization ages nearly 4 m.y. apart. Geomorphic analyses, including estimates of relief, roughness and drainage density and generation of chi plots, indicate that the two main plutons are characterized by different elevations with large longitudinal channel knickpoints that we speculatively attribute to possible reactivation of pre-existing structure in addition to lithologic variations influencing relative erosion susceptibility in response to prior accelerated surface uplift.