A family of molecular capsules, {[(Tp*)Fe(CN)3Co(bpyC═N(CH2)7N═Cbpy)]2[X]2}·sol (1, X = ClO4, sol = 6DMF; 2, X = PF6, sol = 6DMF; 3, X = OTf, sol = 6DMF; 4, X = BPh4, sol = 2DMF; Tp* = hydrotris(3,5-dimethylpyrazol-1-yl)borate; bpy = 2,2'-bipyridine), were prepared via the Schiff-base condensation of the aldehyde-substituted bpy (bpyCHO) and 1,7-diaminoheptane (H2N(CH2)7NH2). All the complexes contain the same cyanide-bridged cationic square cores ([Fe2Co2]2+), which are encapsuled by the flexible alkyl chains. Variable-temperature single-crystal X-ray diffraction, FT-IR spectra, and magnetic studies reveal the abrupt and complete, thermo- and photo-induced electron-transfer-coupled spin transition for 1-3, while the pure high-spin phase for 4. Such distinct behavior is attributed to the effective long-range cooperative interactions mediated by the intercluster π-π couplings in 1-3, which, however, are significantly blocked in 4 due to the steric effect of interstitial BPh4- anions. Furthermore, the shift in the thermally induced transition temperatures of 254 K for 1, 233 K for 2, and 187 K for 3, respectively, is likely correlated to the variable H···O and H···F interactions between the solvent molecules, anions, and the bipyridine ligands of the [Fe2Co2] squares, suggesting the significant anion-dependent effect in such a system.