This study evaluated the potential of using poly(lactic acid)/poly(ε-caprolactone) (PLA/PCL) blends for fused filament fabrication (FFF) and assembly with pure PLA for biomedical applications. PLA/PCL binary blends were meltblended in a twin-screw extruder at different ratios (20/80 to 80/20) and then formed into filaments with a calibrated diameter for FFF. The microstructure, surface properties, and rheological and mechanical behaviors of the blends were assessed. The blends were immiscible but showed signs of adhesion between the phases. It was determined that the fibrillar morphology of inclusions for PLA/PCL ratios higher than 30/70 proved to be driven by the manufacturing process. The tensile mechanical behaviors of printed and injected samples were similar, and their Young's modulus was simulated using Halpin-Tsai and Mori Tanaka models based on the sample microstructure. The ductility of the blends was strongly driven by the behavior of its majority phase. Finally, specific samples were designed to characterize the tensile strength between PLA and its blends by entangling layers of both materials. The strength of the assembly was found to be dependent on the phase that was continuous and was governed by the strength and the viscosity of the blend.