I think people vastly over estimate the power that one president can have. Think about how much of Obama's policy was blocked when he half of congress was against him, now picture both the Republicans and Democrats going against all of Trumps movements. There is simply no way that Muslims will be treated worse in the US.
The only thing Trump can feasibly do would be to implement harsher illegal immigration laws which would have 0 effect on muslims living legally in the US.