Regulatory fatigue the experience of accumulating exhaustion during sustained goal pursuit is a pervasive phenomenon that remains insufficiently explained by existing resource based and value-based models. This short communication introduces the Dynamic Intentional Alignment Research Program (DIARP), a three layer integrated framework for understanding how fatigue emerges under persistent constraint. The first layer, Dynamic Intentional Alignment Theory (DIAT), provides a formal meta-theoretical account proposing that fatigue arises from persistent misalignment between Intentional Direction (ID) and Affective Regulation (AR). The second layer presents computational evidence through two implementations: a spreadsheet simulation demonstrating non-zero equilibrium misalignment and an interactive tool (DRAM) for real-time parameter exploration. The third layer translates the mechanism into applied frameworks, including a three-stage universal protocol (HaE) and a contextual validation in Indonesian Islamic boarding schools (Pesantren). DIARP offers a coherent programmatic foundation for future research on regulatory fatigue, emphasizing temporal dynamics and internal coherence over static resource or cost models.