In almost every derivation of a quantum theory (quantum mechanics or quantum field theory), we start with a classical theory using classical equations and quantize it (by imposing certain constraints on commutation relations, etc).
My question is, isn't the entire process of starting with a classical theory (which is less fundamental) and deriving a quantum theory (which is presumably more fundamental) backwards? Why should we expect the correct fundamental quantum theory that describes our universe to be derivable from a less fundamental (averaged over, approximation) classical theory?