In this study, we address the challenging task of predicting the motion of interfaces in stress-driven martensitic phase transformations within shape memory alloys. The novelty of our approach lies in the introduction of a monolithically solved thermodynamic-based phase-field method, specifically tailored for large strain conditions at the nanoscale for three-dimensional problems. To achieve this, we have developed a custom finite element software seamlessly integrated into the FEniCS open-source framework, providing a sophisticated and efficient tool for the examination of nanostructure evolution. Our investigation delves into five distinct and complex scenarios under diverse loading conditions for two– and three-dimensional problems, each presenting unique challenges: (i) a straightforward uniaxial tension scenario featuring a square domain with a pre-existing martensitic nucleus; (ii) the evolution of interfaces in a square sample incorporating a circular central nanovoid under biaxial tensile stress; (iii) the analysis of a rectangular beam subjected to horizontal and vertical compressive loads; (iv) the assessment of an initially voided rectangular beam experiencing mixed loading conditions; and (v) the three-dimensional simulations of cubic-to-tetragonal phase transformation using various orientation of the habit plane. In contrast to prior studies, our analysis not only explores the standard factors of habit plane reorientation and strain transformation values but also delves into the impact of nanovoids on austenite–martensite interface evolution.