PROBLEM
In ArcGIS Pro, copies of a feature layer can be created from an existing layer. The copied layers uses the original layer as a reference layer. However, when deleting a feature from the reference layer, the feature is also deleted from the copied layer.
This is by design. When a copy of a feature layer is created, the copied layer shares the same features as the reference layer. When a feature is deleted from the reference layer, the same feature is deleted in the copied layer and vice versa.
As a workaround, instead of making a copy the feature layer, export the feature as a new layer to the geodatabase.
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