The freight transport system currently faces several problems that prevent its sustainability and resilience, especially with the spread of COVID-19. To deal with these issues, freight transport performance should be managed and controlled using appropriate indicators. In this paper, a multi-criteria analysis approach is applied to select the most suitable set of sustainability and resilience indicators utilised to assess the performance of freight transport system. In this context, a list of indicators is extracted from the literature. Then, the most appropriate set of indicators is selected based on six selection criteria: understandable, data available, sensible, achievable, predictable and relevant to target. Among 138 sustainability and resilience indicators, only 26 indicators that meet the defined criteria, are selected. These help decision-makers assess the sustainability and resilience of freight transport and propose the necessary modifications to improve the whole system.