Consider the following simple problem: We have a step potential: $$V=V_0\Theta (x)$$ so the Hamiltonian is: $$H=\frac{p^2}{2m}+V_0\Theta(x)$$ and we want to find the eigenfunctions of the Hamiltonian $\psi _E$, so the states with defined energy for our system. This is easy enough to understand and solve.
Since $H$ is not a function of $t$ the time evolution operator $S(t,t_0)$ acting on an eigenfunction of $H$ with energy $E$ has the following structure: $$S(t,t_0)=\exp{\left[\frac{1}{i\hbar}E(t-t_0)\right]}$$ Wonderful! Now we can use the time independent Schrodinger equation: $$H|\psi _E\rangle = E |\psi _E \rangle \ \Rightarrow \ \langle x |H|\psi _E\rangle = E \psi _E (x)$$ and so we get two different differential equations: one for $x<0$ and one for $x \geq 0$. Form here, with some calculation, we get plane waves on both sides if $E>V_0$ and plane waves on the left side and decreasing exponential in the right side if $E<V_0$. At last if we like we can specify the time evolution, given by $S$, to write $\psi(x,t)$ instead of $\psi(x)$: $$\psi _E(x,t)=\psi _E(x)\exp{\left[\frac{1}{i\hbar}E(t-t_0)\right]}$$
Wonderful. I have no problem with this.
But now suppose that our objective changes: we now want to find, for the same system, what happens when a plane wave (so a particle with wave function that is a plane wave) coming from the left side impacts our system.
I feel like I don't know how to solve this problem: this problem seems like a scattering problem, or a time evolution problem where the function is not an eigenfunction of the system.
But I have seen that the way to solve this problem is practically identical to the way we solved the first question: to solve this last question we simply find the eigenfunction of the system, as if the objective was to find them, and then, in the case of $E>V_0$, we simply remove, the plane wave on the right side with $k<0$, and this should represent the fact that the wave comes from the left side.
I know how to solve this last question, but I don't understand why this procedure work! For example: why the particle coming from the left, after impacting the barrier, stays into an eigenstate with defined energy? What theorem ensures this? Couldn't the impact put the particle into a superposition of energy? Remember that the particle has wavefunction that is eigenfunction of $H$ on the left side, but not in all space.
Even worse: the procedure that I cited seem to work almost for all potentials: step potential, well potential, Dirac's Delta potential, and so on. So there must be something essential about quantum particles "dynamics" that I am missing here.
TL;DR: What do the eigenfunction of $H$ have to do with a scattering problem for a plane wave?
(Bonus question: what if the particle impacting from the left side has wavefunction that is not a plane wave? What if, for example, we have a gaussian wave packet coming from the left and impacting our potential?)