diff --git a/fs/nilfs2/ioctl.c b/fs/nilfs2/ioctl.c
index fdb18076948..f3859354e41 100644
--- a/fs/nilfs2/ioctl.c
+++ b/fs/nilfs2/ioctl.c
@@ -664,8 +664,11 @@ static int nilfs_ioctl_clean_segments(struct inode *inode, struct file *filp,
 	if (ret < 0)
 		printk(KERN_ERR "NILFS: GC failed during preparation: "
 			"cannot read source blocks: err=%d\n", ret);
-	else
+	else {
+		if (nilfs_sb_need_update(nilfs))
+			set_nilfs_discontinued(nilfs);
 		ret = nilfs_clean_segments(inode->i_sb, argv, kbufs);
+	}
 
 	nilfs_remove_all_gcinodes(nilfs);
 	clear_nilfs_gc_running(nilfs);