Gaussian can produce natural orbitals instead of molecular orbitals in the log-file: just change "gfprint pop(full)" to "gfprint pop(full,NO)" in the keyline. Unfortunately the resulting log-file is not readable by Jmol because of two features: 1) instead of "Molecular Orbital Coefficients:" the log-file is now contain "Natural Orbital Coefficients:"; 2) the orbital population line (e.g. " O O O V V") is missing for natural orbitals because the population is given by the eigenvalues. I would suggest to modify Jmol code to be able to read natural orbitals because the latter are much more informative than molecular orbitals (except the case when they are identical).
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