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After running the Data Management Tools > Features > Repair Geometry tool on an ArcSDE feature class, geometry errors still exist.
This is expected behavior. The Repair Geometry tool is intended for use with Shapefile and Personal Geodatabase feature classes.
Loading the data into ArcSDE should pick up any geometry errors at that time. If geometry errors still occur after loading, please refer to the following Knowledge Base article, or contact ESRI Support Services.
FAQ: Why does the Check Geometry tool sometimes find errors in ArcSDE feature classes?