Fortunately, this is simply not true. Students cannot just present a problem to Mathematica and have the computer solve it from beginning to end. They must understand the problem well enough to be able to give Mathematica the right instructions to solve it. Mathematica will produce whatever you ask for in the realm of mathematics. There are no magic wands and never will be.
All systems have interfaces.
Whether the system is scattered over the face of the earth, or compressed into a desktop box, it still has an interface. It's not a question of what can or can't be done with atoms. If you have a system that can do literally anything, then the interface will be as complex as the world itself.