I don’t buy that the CDC and WHO that ZIka is for sure to blame for microcephaly. Many questions left unanswered and the correlation appears to be more due to the amount of media coverage connecting the two.
Here’s a recent article expressing some doubts.
https://www.sciencedaily.com/releases/2016/06/160624150813.htm
From the linked article: "One possibility that has been raised is the pesticide pyriproxyfen, which is applied to drinking water in some parts of Brazil to kill the larvae of the mosquitos that transmit Zika. Pyriproxyfen is an analogue for insect juvenile hormone which is cross reactive with retinoic acid, which is known to cause microcephaly."
This fits exactly with my suspicion that the microcephaly is caused by an environmental factor. In this case, the environmental factor would be the pesticide used to control the mosquitoes. And because Zika does not happen without the mosquito vector, and the pesticide is not used unless there are mosquitoes, the microcephaly is only observed in areas where that pesticide is being used--and the cause was mistakenly blamed as Zika.