In Switzerland, surface waters are protected by the Swiss Water Protection Ordinance (OEaux; OFEV 1998), which stipulates that the water quality shall be such that the water, suspended matter, and sediments contain no persistent synthetic substances to ensure the protection of aquatic life. Local agencies are in charge of water quality monitoring, using a set of validated methods. Several lists of priority substances have been developed for aquatic microcontaminants for surface water monitoring but not for sediments. Some local agencies have established sediment monitoring programs, but to date, there exists no harmonized methodology for sediment quality assessment in Switzerland. Within the main goal of developing and providing methodologies for monitoring sediment quality in Switzerland, a screening was performed to help prioritize sediment-relevant microcontaminants. The screening approach was largely based on the NORMAN (network of reference laboratories, research centers, and related organizations for monitoring emerging environmental substances) system and was carried out in four steps: (1) identification of candidate substances, (2) selection of sediment relevant substances, (3) classification of substances into different categories based on identified data gaps and envisaged actions, and (4) ranking within each action category. This paper describes the methodology used in the prioritization process for sediment-relevant substances and provides recommendations for monitoring strategies in Switzerland.