Conductive fillers, such as metals and carbon compounds, often exhibit lower compatibility with polymer matrices, leading to agglomeration phenomena that negatively impact the processing and performance of composites. Polyaniline (PANI) nanofibers, with their high conductivity, rapidly create conductive pathways upon contact, reducing current leakage and dielectric loss in composites. To address the compatibility challenges between fillers and matrices, this study adopts a simple, cost-effective approach for synthesizing highly efficient EMI shielding composites. Specifically, we employ hydrothermal synthesis to enhance the properties of PANI nanofibers and spinel strontium ferrites, significantly improving their performance as filler particles. By modifying the morphology of the conductive fillers and incorporating magnetic particles wrapped with an insulating polymer layer, we enhance filler-matrix compatibility. Notably, the synthesized system is a composite made of natural rubber, highlighting its relevance and importance in the current era. This approach not only improves compatibility but also leverages the sustainable properties of natural rubber, making it a significant advancement in the field of EMI shielding materials. In this paper, we report a flexible EMI shielding composite with efficient EM wave absorption, prepared using a natural rubber-nitrile rubber blend as the matrix, and hydrothermally synthesized improves polyaniline nanofibers and spinel strontium ferrite as functional fillers. The shielding efficiency (SET) increases up to 36 dB with different PANI-SrFe2O4wt percentages. This demonstrates the potential of composite for high-performance applications.