I did not understand the question, my remark might therefore be inappropriate.
To apply cross product like in ordinary vector algebra I should be able to construct a vector,starting from the wave function amplitude. This is possible using e.g. the transition amplitudes in two level systems. The procedure gives rise to a vector and the relevant Scoroedinger equation can be written in terms of a Bloch equation involving a vector cross product.
A more elaborated procedure occurs in relativistic quantum mechanics, when spin is involved.
If you can provide a specific example I might be more helpful.