The new version would have outlawed abortions but included exceptions for rape, incest and pregnancies that threaten the life or health of the woman.
Some voters said they wanted those exceptions when they rejected the earlier version.
Opponents this year said it would jeopardize the patient-doctor relationship because physicians could be criminally charged for exceeding its bounds.
Supporters said doctors abiding by standard medical practices would have nothing to fear.
Among the opponents this year was the anti-abortion group South Dakota Right To Life, which rejected the additional exceptions.
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