Deep-sea bottom photographs acquired in the Clarion-Clipperton fracture zone of the northeast equatorial Pacific were analyzed to reveal the controlling processes for the spatial variation of manganese nodule. The results show that regional-scale occurrence variations of manganese nodule are mainly controlled by primary productivity of surface water, sedimentation rate, and water depth (or carbonate compensation depth). As a result, the diagenetic accretion on nodules increases toward southwest while hydrogenetic accretion increases toward northeast. Considering the northwestward movement of Pacific Plate, this regional-scale variation of manganese nodule occurrence seems to be affected by oceanic environment during the active growth period (Oligocene-Miocene) of Pacific Plate.