This is a poor workaround, but it works:1. Save a screen capture of the Properties window of the relationship class between the feature class you are appending into, and the linked annotation feature class. 2. Drop the relationship class. 3. Run the append tool. Now it should append the new points into their proper locations. 4. Rebuild the relationship class using the same properties as the original. Use the screen capture of the properties window to make sure you set up everything the same as the original.