The Marine Strategy Framework Directive (MSFD) has been an important driver for progress in monitoring and assessment of impulsive underwater noise in the marine environment of the European Union. An important achievement of the MSFD implementation was the development of regional noise registries, providing the data basis for assessments. Recently, the EU has made tremendous efforts to propose harmonized assessment approaches and first-of-their-kind regional quantitative thresholds for impulsive underwater noise. In light of these newly developed thresholds values, we analyze the suitability of the available data in the noise registries for assessment purposes under the MSFD and review sources of uncertainties regarding quantitative results. We present three regional case studies located in the North Sea, the Baltic Sea and the Mediterranean Sea. For each of these regions, a sound-intensive activity was selected that aligned with a realistic impulsive noise event reported for the region. We made use of available data in the noise registries and applied the EU Guidance recommended for the description of impulsive noise sources, but also used alternative approaches and observations as comparison. The case study analysis includes the evaluation of data availability, data quality and data accuracy in the noise registries, and identifies corresponding consequences of the data for the uncertainty and interpretability of assessment results, especially for the quantitative evaluation of habitat areas impacted by noise. Finally, we make suggestions for the improvement of the data basis in the noise registries and the optimization of the assessment accuracy.