diff --git a/editor/editor_node.cpp b/editor/editor_node.cpp
index d57d7a45a7c0..afc225378c46 100644
--- a/editor/editor_node.cpp
+++ b/editor/editor_node.cpp
@@ -1984,6 +1984,9 @@ void EditorNode::_dialog_action(String p_file) {
 
 				if (scene_idx != -1) {
 					_discard_changes();
+				} else {
+					// Update the path of the edited scene to ensure later do/undo action history matches.
+					editor_data.set_scene_path(editor_data.get_edited_scene(), p_file);
 				}
 			}
 
diff --git a/editor/plugins/tiles/tile_set_atlas_source_editor.cpp b/editor/plugins/tiles/tile_set_atlas_source_editor.cpp
index f4290ba508ce..e0df73596e3e 100644
--- a/editor/plugins/tiles/tile_set_atlas_source_editor.cpp
+++ b/editor/plugins/tiles/tile_set_atlas_source_editor.cpp
@@ -2138,7 +2138,7 @@ void TileSetAtlasSourceEditor::_undo_redo_inspector_callback(Object *p_undo_redo
 		Ref<TileSetAtlasSource> atlas_source = atlas_source_proxy->get_edited();
 		ERR_FAIL_COND(!atlas_source.is_valid());
 
-		UndoRedo *internal_undo_redo = undo_redo_man->get_history_for_object(atlas_source.ptr()).undo_redo;
+		UndoRedo *internal_undo_redo = undo_redo_man->get_history_for_object(atlas_source_proxy).undo_redo;
 		internal_undo_redo->start_force_keep_in_merge_ends();
 
 		PackedVector2Array arr;
@@ -2162,7 +2162,7 @@ void TileSetAtlasSourceEditor::_undo_redo_inspector_callback(Object *p_undo_redo
 				String prefix = vformat("%d:%d/", coords.x, coords.y);
 				for (PropertyInfo pi : properties) {
 					if (pi.name.begins_with(prefix)) {
-						ADD_UNDO(atlas_source.ptr(), pi.name);
+						ADD_UNDO(atlas_source_proxy, pi.name);
 					}
 				}
 			}