Building on earlier work identifying Biologically Important Areas (BIAs) for cetaceans in U.S. waters (BIA I), we describe the methodology and structured expert elicitation principles used in the “BIA II” effort to update existing BIAs, identify and delineate new BIAs, and score BIAs for 25 cetacean species, stocks, or populations in seven U.S. regions. BIAs represent areas and times in which cetaceans are known to concentrate for activities related to reproduction, feeding, and migration, as well as known ranges of small and resident populations. In this BIA II effort, regional cetacean experts identified the full extent of any BIAs in or adjacent to U.S. waters, based on scientific research, Indigenous knowledge, local knowledge, and community science. The new BIA scoring and labeling system improves the utility and interpretability of the BIAs by designating an overall Importance Score that considers both (1) the intensity and characteristics underlying an area’s identification as a BIA; and (2) the quantity, quality, and type of information, and associated uncertainties upon which the BIA delineation and scoring depend. Each BIA is also scored for boundary uncertainty and spatiotemporal variability (dynamic, ephemeral, or static). BIAs are region-, species-, and time-specific, and may be hierarchically structured where detailed information is available to support different scores across a BIA. BIAs are compilations of the best available science and have no inherent regulatory authority. BIAs may be used by international, federal, state, local, or Tribal entities and the public to support planning and marine mammal impact assessments, and to inform the development of conservation and mitigation measures, where appropriate under existing authorities. Information provided online for each BIA includes: (1) a BIA map; (2) BIA scores and label; (3) a metadata table detailing the data, assumptions, and logic used to delineate, score, and label the BIA; and (4) a list of references used in the assessment. Regional manuscripts present maps and scores for the BIAs, by region, and narratives summarizing the rationale and information upon which several representative BIAs are based. We conclude with a comparison of BIA II to similar international efforts and recommendations for improving future BIA assessments.