If you are using DynamicWidgets, this widget has its own maxValuesPerFacet parameter that has a default value of 20. This value is set at query time, so it will override your index setting for maxValuesPerFacet (which is set to 100 by default).
If you are not seeing all of the expected facet values in your widgets (based on your facet display settings), try increasing the maxValuesPerFacet parameter on DynamicWidgets.
If you toggle "Use facet display ordering" in the Algolia dashboard, then the dashboard will imitate the same behavior as DynamicWidgets. To resolve this on the dashboard, simply add the maxValuesPerFacet value you want as a query parameter in the + Add Query Parameter > Custom tab.