In late 1950’s, the beginning of container revolution has started a new paradigm shift in maritime industry worldwide. This new paradigm has become a major reason for seaport systems to prepare their physical capacity, space availability, multi-modalism, transport connectivity via regionalisation. However, in early 2010’s the introduction of industrial revolution 4.0 (IR4.0) which starts the era of immersive digitalization proved that seaport systems need to be prepared to face pattern of unstable magnitudes in dynamic maritime trade. Therefore, this paper analyses key components required for Malaysian seaport system to be aligned with the key requirements in IR4.0. By employing document analysis, this research analyses the challenges faced by Malaysian seaport system as well as suggests strategies to muddle through the key requirements of IR4.0. The findings from this research indicate that Malaysian seaport system need to be improved by enforcing skill-based education system, flexibility in labour structure, development in skill and competence level as well as improvement in infrastructure suitability. The findings from this research also reflect significant strategies to improve seaport system in the era of IR4.0 including enhancing requirements for intermodal terminals, improving preparation for seaport alliances, developing mechanism for interoperability, improving utilisation of intra and interregional economic development as well as scrutinising safety and security.