There is something I really do not understand about quantum mechanics when we specifically solve, for example, the hydrogen atom. In every book about quantum mechanics we calculate the eigenfunctions by solving the time independent Schrödinger equation $$\hat{H} \Psi_{n}=E_{n}\Psi_{n} $$ But once we have done that the linearity of the Schrödinger differential equation allows us to find solutions of the form $$\Phi=\sum_{n} C_{n}\Psi_{n} $$ So my question is: Why do we always find the Hydrogen atom (after waiting some reasonable amount of time) in its ground state (if we don't apply any field) when the quantum theory allows us to have a superposition of states? My "naive" first thought would have been that we could find the Hydrogen atom in one eigenstate (with a certain probability), but we could also find it in another different eigenstate (with another probability), but the case is that we always find it in its ground state. Then I thought that maybe the initial state $\Phi(t=0)$ evolves with time making the ground state be the most likely after some time passed, but that doesn't make sense because $$\Phi(t)=\sum_{n} C_{n} e^{-it\hat{H}/\hbar} \Psi_{n}=\sum_{n} C_{n}e^{-itE_{n}/\hbar}\Psi_{n} $$ and that means that the probability of finding each state doesn't change with time. Of course I understand that there is also the point of view in which the wave function is "given" and we measure the probability of finding every eigenstate experimentally and we construct with these probabilities the wave function, but I thought that there would be a more "fundamental" physical reason for which the hydrogen (and I suppose any atom) prefer the ground state above any else.
I'm still an undergraduate student so maybe this question is very obvious for many of you.