Transition-metal doping engineering is an important strategy to adjust the structures of electrode materials (i.e., nickel selenides) for supercapacitors (SCs), and there remain great challenges to seek rational methods for realizing systematical doping. Herein, based on the open-channel structures of Ni 0.85 Se and NiSe, a simple hydrothermal process combined with a universal ion exchange reaction was designed to fabricate Ni 0.85−x Se and NiSe nanoflowers doped by a series of 3d-transition-metal M 2+ ions (M = Co, Cu, and Zn). Structure, morphology, and spectroscopic characterizations as well as Rietveld refinement were employed to research the phases, morphologies, and compositions of Ni 0.85−x Se, NiSe, M x Ni 0.85−x Se, and M x Ni 1−x Se. It was demonstrated that the unique structures of Ni 0.85 Se and NiSe reduce the activation energies of M 2+ ions transported through the interstitial lattice position, and the formation of Ni 2+ vacancies decreases the steric hindrance of the insertion of divalent cations.Thus, Ni 2+ was easily substituted by M 2+ ions via cation exchange reaction at room temperature in water, realizing a 5−7% doping amount. Such transition-metal doping effects, from crystal structure modulation to electronic conductivity improvement, can effectively enhance the supercapacitor properties of Ni 0.85 Se and NiSe. The Co x Ni 1−x Se electrode delivers specific capacitances of 918.8, 770.5, 617.5, 496.9, and 437.5 F g −1 at 1, 2, 5, 7.5, and 10 A g −1 , respectively, which is the best among the eight electrodes. Besides, the "kick-out" cation exchange mechanism for the synthesis of M x Ni 0.85−x Se and M x Ni 1−x Se was discussed in detail. This work gives us feasible guidance to fabricate desired nickel selenides for SCs; moreover, the facile and universal cation exchange route can be expanded to purposefully design other cation-doped transition-metal selenides for energy storage.