A more correct interpretation would be that a woman's body is less conducive to conception during a traumatic episode, not that her body somehow shuts down entirely to prevent the pregnancy.
Some have suggested that Akin was referring to a higher probability of miscarriage. You suggest that "ways to shut that whole thing down" was intended to mean "less conducive to conception". There are several possible interpretations.
(a) Making a statement open to multiple interpretations on a hot-button topic for half the electorate that is not at issue in the campaign, which
(b) Akin never claimed was supported by scientific evidence, and
(c) instead of using your phase "traumatic episode", using the charged term "legitimate rape", once again open to multiple interpretations,
is a political hanging offense.