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The crystal structure of the organic–inorganic title salt, [Mn(C18H18N2O4)(H2O)2]ClO4, has been redetermined at 100 K. In contrast to the crystal structure determinations at room temperature [Akitsu et al. (2005). Acta Cryst. C61, m324–m328; Bermejo et al. (2007). Eur. J. Inorg. Chem. pp. 3789–3797], positional disorder of the ethylene bridge in the Schiff base ligand and the perchlorate anion is not observed at 100 K. The MnIII ion is six-coordinated with the tetradentate Schiff base chelate ligand N,N′-bis(3-methoxy-2-oxybenzylidene)ethylenediamine occupying coordination sites in the equatorial plane and the aqua ligands residing in the two axial positions. The octahedral coordination sphere of the MnIII ion exhibits an axial elongation due to the Jahn–Teller effect, which is characteristic of a d4 high-spin electronic configuration.