The shallow marine channels and fans in the Yinggehai Basin have huge hydrocarbon exploration potential. The depositional features and filling processes of the submarine channel and fan system during 10.5–7.2 ma were studied based on seismic data, cores, well curves, and lab data. (1) Five depositional elements were recognized in the channel system, including PSC, MSC, DSC, levee, and abandonment fill, and the deposits show the typical sedimentary structure of debris flow. The filling process of the channel system was divided into three stages based on deposits supply intensity. The stages were made up of several filling units, and each unit possessed at least one complete channelized depositional succession. (2) The fan system was developed under the large-scale “U” shaped feeding canyon, and its filling process was divided into two stages, the shape and distribution were controlled by shelf break and syn-sedimentary faults in the early stage, and was influenced by the localized changes of paleogeomorphology in late stage. The influence factors for the development of gravity-driven systems were summarized into two levels: regional depositional environment changes and localized distinctive geologic settings. The former one controlled the development of shallow water gravity-driven deposits in the whole basin, mainly including rapid falling of sea-level, moderate subsidence rate, and stable deposits supply. The latter one controlled the morphology and distribution of depositional elements in gravity-driven systems. The pre-existing banded low terrain induced by blind faults controlled the shape of the confined channel, and variable faulting intensity in different segments of the syn-sedimentary fault and localized paleogeomorphology changes influenced the distribution of channels and inner fan in the fan system. The study of deposition features, internal architecture, and controlling factors may provide a reference for further exploration in this area and a deeper understanding of gravity-driven processes in shallow marine.