This a nice article and I think it highlights something fundamental, children are people. It may seem like a silly statement, but when we silence our children or become too easily annoyed, it can be easy to forget that they are a little person working out many things, processing, and are capable of some rather complex thinking.
Maria Montessori spoke about annihilating the child by silencing them. We, as parents, have the responsibility to help them grow and exercising patience. I think from that starting point of respect comes the opening of logical questioning, as noted in the article. If that starting point is not there, the trust and safety that children really depend upon is not there and they will be stifled.
Once that secure relationship is established at home, then they will be courageous in many things, including in and outside of school. I think children do indeed get locked into the mentality of there is only one way or one answer because of the system of learning, and maybe that is what is necessary at times to get through certain courses, but beyond that, they will need a logical, rational, and complex system of thought. Life is so much more than just the model that is sometimes present and we definitely need to show them that there many ways to view the world and approach problems.