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The IHydrologyOp.Fill method generates output as a temporary grid. This output is deleted from the working directory unless it is saved; however, intermediate temporary grids are left behind in the working directory.
This is a known problem with ArcGIS 8.1.
This issue has been addressed in ArcGIS Version 8.1.2.
In ArcGIS 8.1, use ArcCatalog to delete the intermediate temporary grids.