Did you read the article? This issue has nothing to do with the patent clause in their libraries. This is a problem with the GraphQL spec being patented. Since

Did you read the article? This issue has nothing to do with the patent clause in their libraries. This is a problem with the GraphQL spec being patented. Since there is no grant of GraphQL itself, any library implementing it on the server side that isn't written by Facebook and conveying that grant, is infringing.