Checking section thickness up front can be helpful in selecting sampling parameters appropriate for each specimen. Thin tissue will limit you to a short disector that may require the use of more sampling sites to obtain your target cell counts—smaller SRS Grid step sizes produce more sampling sites.
This FAQ comes from stereology.info, our curated collection of information and references regarding the use of stereology in the biological sciences. Feel free to review the other FAQs there as well. We hope this thread will spark some in-depth discussion on stereology!