We study the nonlinear effects in the quantum states transfer technique from photons to matter waves in the three-level case, which may provide the formation of a soliton atom laser with nonclassical atoms. The validity of quantum transfer mechanism is confirmed in the presence of the intrinsic nonlinear atomic interactions. The accompanied frequency chirp effect is shown to have no influence on the grey solitons formed by the output atom laser and the possible quantum depletion effect is also briefly discussed.