35 pages, 2 figures, LaTeXUsing techniques of algorithmic algebraic geometry, we present a new and efficient method for explicitly computing the vacuum space of N=1 gauge theories. We emphasize the importance of finding special geometric properties of these spaces in connecting phenomenology to guiding principles descending from high-energy physics. We exemplify the method by addressing various subsectors of the MSSM. In particular the geometry of the vacuum space of electroweak theory is described in detail, with and without right-handed neutrinos. We discuss the impact of our method on the search for evidence of underlying physics at a higher energy. Finally we describe how our results can be used to rule out certain top-down construction...