Biodiversity is context-specific, and there are no one-size-fits-all indicators or monitoring methodologies. Nevertheless, the lack of common metrics to measure and monitor biodiversity at different levels in agriculture poses a barrier to mobilizing actors, setting ambitious targets and assessing policy impact. This publication seeks to overcome that barrier through a flexible framework that uses existing tools to assess functional and habitat diversity by measuring diversity at various scales, including belowground, aboveground, habitat-level and national impact (impact on land-use change or downstream pollution).