The atomic numbers of the elements are:
- Uranium (U) has an atomic number of 92.
- Neptunium (Np) has an atomic number of 93.
- Plutonium (Pu) has an atomic number of 94.
- Rutherfordium (Rf) has an atomic number of 104.
Thus, Rutherfordium has the highest atomic number among the options.
Therefore, the correct answer is: \[ \boxed{(D) \, \text{Rutherfordium}} \]