Here is a good article that seems much more unbiased. It looks like there is no real scientific link.
Is there evidence supporting a link between autism and GMOs
However, whether you are searching for a link between autism and GMOs or autism and glyphosate, your findings can be summarized in one brief sentence: “there is no data that I could find”.
Throughout the course of doing research for this piece, I contacted several research scientists including my former lab, which is now one of Canada’s leading autism research laboratories and part of a project that is sequencing the genomes of ten thousand ASD patients (note that I am not an ASD research scientist). My request for an opinion on the topic was passed from one research scientist to the next and across the board, I got the same message: “there is no evidence-based data we are aware of”. That is not to say that a link does not exist or may not be identified in the future, but as I write this article, there is no credible research linking GMOs to autism.
[...] The onus is on the researcher to disprove the null hypothesis, i.e. to prove that something exists or that there is a link. Until that point in time, there is no link.
[...] The link is a classic case of association with no causation.
There’s a plethora of items whose prevalence or use has increased during the past 20 years: the number of electronics we own, the number of pedicures women get, the amount of coffee we drink, etc, and each would make an equally convincing graph if their rate was compared to the incidence of ASD over time. This is not to say that glyphosate should not be studied; yet until a link is identified, its association with ASD is equivalent to that of eating organic food, whose salves have also risen in tandem with the increase in incidences of autism.