Lacustrine beach-bar reservoirs have become important exploration targets in the Bohai Bay Basin in China, especially in the Banqiao Sag within the Huanghua Depression, where some typical thick layer beach-bar reservoirs have been discovered recently. The average single-layer thickness of the beach-bar sand bodies in the second member of the Paleogene Shahejie Formation within the sag is greater than 10 m and the cumulative thickness of these sands reach up to 100 m. The second member of the Shahejie Formation in the Banqiao Sag consists of a third-order sequence of three systems tracts—a lowstand systems tract, a transgressive systems tract, and a highstand systems tract. Beach-bar sand bodies were deposited widely in the sag in the lowstand systems tract, but were less deposited in the other systems tracts. The sedimentary characteristics, distribution patterns, and formation mechanisms of the beach-bar sand bodies in the lowstand systems tract of the second member of the Shahejie Formation were systemically studied using cores, wireline logs and 3D seismic data. The beach-bar was divided into five sedimentary microfacies, namely, sandy bar centre, sandy bar flank, interbar deposit, coastal beach, and infralittoral beach. Based on the integrated analysis of the paleostructure and sedimentary environment, it was inferred that the thick layer beach-bars in this area resulted from the combination and joint control of the sediment source system, hydrodynamic environment, lake level variations, and contemporaneous fault activity. Firstly, the sands in the braided river delta of the Beidagang buried hill structural belt served as the provenance that provided the material basis for the beach-bars in the Banqiao Sag. Secondly, the wave effects in the gentle-slope belt controlled the scale and distribution of the beach bars. Under the control of waves, various sedimentary microfacies were regularly distributed. In particular, the continuous activity of the contemporaneous Dazhangtuo Fault contributed to the formation of the thick layer beach-bars in the Banqiao Sag. The contemporaneous fault controlled the allocation of the sediments, providing abundant sands in the downthrown side of the fault. In addition, there was a constant high-energy hydrodynamic environment near the fault plane, where the sand bodies experienced long-term reworking by waves and gradually formed beach-bars with large thickness. The activity of the contemporaneous fault increased the accommodation space in the lowstand systems tract of the second member of the Shahejie Formation, which resulted in continuous sand deposition and provided the necessary conditions for forming the thick layer beach-bars.