In the book The Emperor's New Drugs, about the efficacy of anti-depressants (or lack thereof), Kirsch gives the example that if you had a group of 500,000 people and found that smiling frequently increases life expectancy by 10 seconds on average, this may well be statistically significant because the study population is so large. However, it's not clinically significant because no one really cares if they live an extra 10 seconds, certainly not enough to change some major aspect of their behavior at least.
In this case, if the chances of having kids with autism or schizophrenia increase by/to? at most 2%, as the article states, then in practice this shouldn't really deter anyone from having kids. Thus, while the findings are statistically significant, they are not clinically significant.