To understand the degradation mechanism of organic solar cells (OSCs), the charge dynamics of conventional and inverted planar heterojunction OSCs based on boron subthalocyanine chloride (SubPc) and fullerene (C60) with identical buffers during the air exposure were investigated. The results of light intensity dependent open circuit voltage show that the bimolecular recombination is dominated in the fresh devices, regardless of the device structure. The appearance of transient peak in photocurrent after turn-on and the light intensity independent turn-off traces in transient photocurrent suggest that the rapid degradation of conventional device is due to the energy loss originated from the aggravated trap mediated recombination. In contrast, the half-lifetime of inverted device is ∼25 times longer than the conventional one. The improvement of stability is ascribed to the decrease of the trap generation possibility and the suppression of trap mediated recombination in the case of inverted structure, where the penetration of oxygen and water through buffer layer is avoided.