Port operational efficiency is considered as one of the most important competitive factors and plays a critical role in the port development all over the world, especially container ports. Haiphong Port, which is in the northern of Vietnam, is planned to become one of the national and regional ports. To do this objective, it is important to analyse the operational efficiency of its container terminals. The paper aims to comparatively analyse the operational efficiency of 16 container terminals in Haiphong Port from 2016 to 2022 by basic and Malmquist DEA models. With 112 observations collected and calculated in R software, DEA models have five inputs (container yard area, number of quay crane, berth draft, berth length, labour force) and one output (annual cargo throughput). Consequently, Hai An, Tan Vu, and Vip Greenport are more efficient terminals over the 7-year period, whereas Transvina and MIPEC have lower efficiency. Paper contributions are the literature review about port operational efficiency and references to propose resolutions in next author’s research as well as masterplans to develop Vietnam seaport’s system. Besides, the limitations are discussed as the number of observations and environmental factors in ports.