Many if not all gold systems are spatially related to zones of mechanical weakness in the lower-middle crust and continental lithospheric mantle. Where preserved, these zones of lithospheric heterogeneity or lithospheric discontinuities reflect the finite cumulative lithospheric damage associated with paleo-tectonic events in a given region including rifting and collision. This fundamental architecture is regarded as applying a first order control on the locus of tier one ore deposits. Accordingly, the identification and mapping of this fundamental architecture of the deep crust and continental lithospheric mantle is critical for explorers in order to improve their predictive capacity. Yet, the confident identification of such fundamental architecture through traditional geological, geochemical, and geophysical datasets is a difficult exercise, especially in poly-deformed and poly-metamorphosed Precambrian terranes. Using the well-endowed and well-explored Archean Yilgarn Craton as a natural laboratory, this project aims at imaging such fundamental architecture through multidisciplinary data integration (potential fields, seismic, isotopic geochemistry, topographic and geological data). Strike-extensive lineaments are identified in the lower-middle crust of the Yilgarn Craton, some of which are consistently imaged in geological, geophysical, isotopic, and topographic dataset. The results of this lineament analysis indicates that some strike-extensive lineaments mimic the orientation of the craton margins and largely reflect the post-cratonization history of the Yilgarn Craton. In contrast, a discrete set of strike-extensive lineaments appears oblique to the main NNW-SSE-oriented structural grain established during tectono-stratigraphic terrane assembly of the Yilgarn proto-craton. By comparing our results against current knowledge on the geological evolution of the Yilgarn Craton, it is proposed that such oblique lineaments represent discontinuities in the proto-Yilgarn crust that existed prior to, or at the onset of intra-cratonic rifting at c. 2730 Ma and deposition of the supracrustal cover in the Kalgoorlie-Kurnalpi Rift between c. 2720 and 2690 Ma. Importantly, these lineaments are shown to broadly overlap with the location of tier one gold deposits and, thus, represent key features to incorporate in a targeting workflow at the craton to terrane scale.