This chapter explores the challenges and limitations inherent in utilizing Fused Deposition Modeling (FDM) 3D printing technology within the pharmaceutical industry. FDM 3D printing has emerged as a promising tool for the fabrication of personalized dosage forms, drug delivery systems, and medical devices, offering unique advantages such as customization, rapid prototyping, and precise control over drug release profiles. However, several hurdles impede its widespread adoption and implementation in pharmaceutical manufacturing. This chapter systematically examines these challenges, encompassing technical constraints, regulatory considerations, material selection issues, and the need for standardized processes. Moreover, it delves into the limitations associated with FDM 3D printing in terms of scalability, resolution, reproducibility, and the complexity of multi-component formulations. By shedding light on these obstacles, this chapter aims to provide a comprehensive understanding of the current state of FDM 3D printing in pharmaceuticals and pave the way for future advancements and solutions in this rapidly evolving field. With the help of case studies, the author will try to explain practical approaches. Which will provide practical insight into the facts.