### Godot version

4.0 stable

### System information

Windows 10

### Issue description

Running .clear() on a TileMap with Scene tiles leaves the tiles in place, as though nothing happened.

This appears to be the same issue as raised in [#69596](https://github.com/godotengine/godot/issues/69596), [#72456](https://github.com/godotengine/godot/pull/72456), and [67330](https://github.com/godotengine/godot/pull/67330). None of the previous issues seem to have presented a fix for this issue besides running some dummy operations on the TileMap, which have not had any effect for me.

Manually running queue_free() on each tile scene doesn't work, presumably since they are being cached. And running a dummy operation on the TileMap doesn't have any impact to speak of.

Not sure how to proceed, or if it's just impossible to remove Scene tiles once they're created.

### Steps to reproduce

The minimal reproduction project has a TileMap with several simple scene tiles. The attached script attempts to .clear() the TileMap when the user presses Enter, demonstrating my issue.

### Minimal reproduction project

[TileMapMinimumRecreationProject.zip](https://github.com/godotengine/godot/files/10959111/TileMapMinimumRecreationProject.zip)

clear_internals();
	tile_map.clear();
	recreate_internals();
	used_rect_cache_dirty = true;
}
Ref<TileMapPattern> TileMapLayer::get_pattern(TypedArray<Vector2i> p_coords_array) {
	const Ref<TileSet> &tile_set = tile_map_node->get_tileset();
	ERR_FAIL_COND_V(!tile_set.is_valid(), nullptr);
	Ref<TileMapPattern> output;
	output.instantiate();
	if (p_coords_array.is_empty()) {
		return output;
	}
	Vector2i min = Vector2i(p_coords_array[0]);
	for (int i = 1; i < p_coords_array.size(); i++) {
		min = min.min(p_coords_array[i]);
	}
	Vector<Vector2i> coords_in_pattern_array;
	coords_in_pattern_array.resize(p_coords_array.size());
	Vector2i ensure_positive_offset;
	for (int i = 0; i < p_coords_array.size(); i++) {
		Vector2i coords = p_coords_array[i];
		Vector2i coords_in_pattern = coords - min;
		if (tile_set->get_tile_shape() != TileSet::TILE_SHAPE_SQUARE) {