The formation of a robust, self‐healing hydrogel of a novel pyrene‐appended dipeptide, Py‐E‐A (L‐Glutamic acid short as E; L‐Alanine short as A) is demonstrated. Detailed studies suggest that nanoscopic fibers with a length of several micrometers have formed by chiral self‐organization of Py‐E‐A gelators. Additionally, live human PBMCs imaging is shown using the Py‐E‐A fluorophore. Interestingly, electron‐rich Py‐E‐A couples with electron‐deficient NDI‐β‐A (β‐Alanine short as β‐A) by charge transfer (CT) complexation and forms stable deep violet‐colored CT super‐hydrogel. X‐ray diffraction, DFT, and 2D ROESY NMR studies suggest lamellar packing of both Py‐E‐A and the alternating CT stack in its hydrogel matrixes. Supramolecular chirality of the Py‐E‐A donor can be altered by adding an achiral acceptor NDI‐β‐A. Notably, the fibers of the CT hydrogel are found to be even thinner than the Py‐E‐A fibers, which, in turn, makes the CT hydrogel more tolerant to the applied strain. Further, the self‐healing and injectable properties of the hydrogels are shown. Finally, the magneto‐responsive behavior of the Py‐E‐A and CT hydrogels loaded with spin‐canted Cu‐ferrite (Cu0.6Zn0.4Fe2O4) nanoparticles (NPs) is demonstrated. The presence of magnetic NPs within the hydrogels has changed the fibrous morphology to rod‐like nanoclusters.