In this case study, we demonstrated the implementation of basic guidelines and relevant metabolomics domain specifications to increase support of the FAIR principles as part of the metabolomics workflow design. We have employed a use-case workflow for metabolomics data analysis, the Metabolome Annotation Workflow (MAW) . Here, we elaborate on how to make this research workflow transparent and reproducible, packaged with FAIR-supporting metadata. These guidelines are specifically tailored for workflow data objects; other data objects may require different standard guidelines . This FAIR-MAW framework can be extended to more complex bioinformatics/cheminformatics workflows.