Can somebody please help me to understand how one judge from one district court can change an order issued by the Supreme Court? Didn't The Court give the Trump administration the authority to define a "bona fide" relationship?

What would stop a conservative judge from reversing or revising a ruling that the Supreme court made that they did not think was right?  When did 'Supreme' stop being supreme? 

I'm serious. Someone please help me understand this. I'll check back later. Thanks!