The effective removal of organic dyes from aqueous solutions is of paramount importance in addressing environmental pollution challenges. Methylene blue (MB), a prevalent cationic dye in various industries, has raised concerns due to its persistence and potential adverse effects on ecosystems. This study explores the design, preparation, and characterization of Polycaprolactone–Chitosan (PCL–CH) nanofibers via electrospinning for the removal of MB. PCL, known for its biodegradability and mechanical properties, serves as the primary matrix, while chitosan (CH), with its biocompatibility and amino functionalities, offers enhanced adsorption potential. The electrospinning process yields nanofibers with tailored compositions and controlled morphology. The synthesized nanofibers are systematically characterized, encompassing structural analysis by Fourier transform infrared (FT–IR), spectroscopy, morphology, and composition assessment via Field emission scanning electron microscopy (FE-SEM) and energy-dispersive X-ray spectroscopy (EDS), zeta potential, as well as rheological behavior evaluation. The adsorption uptake of MB onto these nanofibers is investigated, considering the influence of solution pH and initial dye concentration. The results reveal significant enhancements in adsorption capacity, especially with the incorporation of CH, with the PCL–CH 30% nanofibers exhibiting outstanding performance. The pH-dependent behavior underscores the importance of environmental factors in the adsorption process, while higher dye concentrations provide a stronger driving force for adsorption. These findings position PCL–CH nanofibers as promising adsorbents for the efficient removal of MB and potentially other organic contaminants from aqueous solutions. The study contributes to the development of sustainable materials for environmental remediation, wastewater treatment, and related applications, aligning with ongoing efforts to address water pollution challenges.