The line shunts are usually ignored by various linear power flow (PF) models in power distribution system analysis, planning and optimization. However, “charging effects” from line shunts of underground/submarine power cables would cause non-negligible model errors for these commonly used PF models. In this paper, we propose a modified Linear Distflow model (LinDist) with line shunts, i.e., LinDistS. We also further propose its extensions considering the ZIP load, weakly-meshed topology and unbalanced three-phase systems. Moreover, the linearization error of voltage component is theoretically analyzed. Case studies show that compared with other models, the proposed LinDistS achieves the descent calculation accuracy and efficiency. We also show the application scope of LinDistS by a Volt/VAr control (VVC) framework with distributed generators, mainly photovoltaic (PV), and the non-negligible “charging effect”. Simulation exhibits that with LinDistS, the VVC can optimally dispatch the shunt capacitors and also optimize the real-time reactive power output of PV. Moreover, with LinDistS, the VVC shows better solutions’ consistency and higher computing efficiency compared to traditional VVC methods.