Abstract The 2013/2017 Nankai Trough (Japan) and 2017 Shenhu Area (China) offshore methane hydrate production tests showed the world the possibility and feasibility of the oceanic methane hydrate production by depressurization. However, the relatively low gas production rate still remained as one of the critical bottlenecks for the economical utilization. This study chose the Nankai Trough as a target area, and aimed at the gas recovery enhancement from the methane hydrate reservoir using vertical wells. A traditional single-vertical-well system and a new dual-vertical-well system were proposed, and special production strategies of the aggressive depressurization and permeability improvement were applied to these two systems for the effectiveness verification. Based on the 15-year simulation results, it was found that the middle low-permeability silt-dominated layers in the reservoir held the key to the gas recovery enhancement, and for the single-vertical-well system, the permeability improvement in this sublayer seemed more reliable and feasible than the aggressive depressurization. On the other hand, the dual-vertical-well system significantly exceeded the single-vertical-well system due to the synergistic effect of the two wellbores, and could raise the average gas production rate (9.5 × 103 m3/day) by one order of magnitude (to 7.9 × 104 m3/day). Moreover, if this new system was combined with the aggressive depressurization, the average gas production rate could be further raised by one order of magnitude (to 3.4 × 105 m3/day).