Decarbonizing maritime freight in Indonesia requires the joint assessment of ship propulsion, energy storage, wind assistance, and port electrification. This study develops a transparent scenario-based appraisal of a proposed 3,000-DWT-class hybrid green logistic ship for an illustrative Surabaya–Banjarmasin feeder service. The concept combines an LNG/diesel powertrain, 1,200-kWh battery energy storage, a Flettner rotor, and a 1-MW onshore power interface. The analytical framework follows IMO guidance for the Energy Efficiency Operational Indicator (EEOI), separate well-to-wake accounting, and discounted cash-flow analysis; national port statistics provide contextual evidence but cannot establish vessel-level fuel use or cash flows. A numerical consistency check of assumptions reported in the submitted manuscript—USD 1.85 million additional investment and USD 412,000 constant annual net savings over 15 years at 7.5%—produces a scenario NPV of USD 1.787 million, an internal rate of return of 21.0%, and discounted payback of approximately 5.69 years. These are conditional calculations, not observed commercial outcomes. The proposed 38.6% fuel saving and 82.3% life-cycle abatement cannot be validated without measured duty cycles, verified component performance, and fuel/electricity emission factors. The principal contribution is therefore an auditable assessment protocol and an explicit data-validation agenda for Indonesian short-sea freight electrification.