This is a loose follow up to this question: Interpreting Argyres' spectrum of spontaneously broken SUSY QM.
In SUSY QM, the Hamiltonian can be cast as a 2x2 matrix $$ H = \frac{1}{2}p^2 + \frac{1}{2}W(q)^2 + \frac{1}{2}W'(q)\sigma_3= \begin{pmatrix}H_+&0\\0&H_-\end{pmatrix} $$ where $H_\pm = \frac{1}{2}p^2 + V_\pm$ are the spin-up and spin-down Hamiltonians and $V_\pm=\frac{1}{2}W(q)^2 \pm \frac{1}{2}W'(q)$ are their potentials (do I understand this correctly?).
Eigenfunctions of this system is always of the form $\begin{pmatrix}\phi_+\\0\end{pmatrix}$ and $\begin{pmatrix}0\\\phi_-\end{pmatrix}$. Question: In light of statements below, Is this always true?
On page 87 of Mariño's notes, he illustrates SUSY breaking with the superpotential $$W(q) = \lambda q^2 -\mu^2\,,$$ and the corresponding potentials are plotted:
Now, it is claimed that instantons allow transitions from the left vacuum to the right vacuum:
$$\langle q_+, \uparrow, T=-\infty |\hat\psi_+(t)| q_-, \downarrow, T=+\infty \rangle = \text{non-zero}$$
We need a $\psi_+$ operator to soak up a fermionic zero mode, and flips the spin from $+$ to $-$ or vice-versa. The mathematical computations is absolutely clear to me. But now I'm running into a frustrating contradiction:
If the Hamiltonian is diagonal, how can the system possibly flip the spin as it tunnels from one vacuum to the other? Remember, stationary states can always be put in the form $\phi_+$ or $\phi_-$ of definite spin. Flipping spin can only happen if the Hamiltonian has an off-diagonal term as in $\begin{pmatrix}H_+&H_x\\H_x&H_-\end{pmatrix}$. But in SUSY-QM it doesn't!
Is there some effective Hamiltonian that allows this?!, (with the off-diagonal elements acting as some kind of 't Hooft effective vertex?)? If so, standard treatments (e.g. numerical ones) to solve the QM system as an eigenvalue problem would totally miss this effect because they would start from a diagonal Hamiltonian! What's the resolution to this contradiction?