There seems to be an optimizer problem in 5.1, if you put a NULL in the IN clause of a SELECT. For example, given the following table:

CREATE TABLE foo (
    a INT NOT NULL AUTO_INCREMENT,
    PRIMARY KEY (a)
);

Compare these two EXPLAINs:

mysql> EXPLAIN * FROM foo WHERE a IN (160000, 160001, 160002)\G
*************************** 1. row ***************************
           id: 1
  select_type: SIMPLE
        table: foo
         type: range
possible_keys: PRIMARY
          key: PRIMARY
      key_len: 4
          ref: NULL
         rows: 3
        Extra: Using where
1 row in set (0.06 sec)
mysql> EXPLAIN SELECT * FROM foo WHERE a IN (NULL, 160000, 160001, 160002)\G
*************************** 1. row ***************************
           id: 1
  select_type: SIMPLE
        table: foo
         type: ALL
possible_keys: PRIMARY
          key: NULL

There’s a change of behaviour in MySQL 5.1.31 for Row Based Replication, if you have InnoDB transactions that also write to a MyISAM (or other non-transactional engine) table. It’s a side effect of fixing Bug #40116. Take this simple example:

Transaction 1: INSERT INTO myisam_tbl (item, val) VALUES (1, 0);
Transaction 1: INSERT INTO innodb_tbl (item, val) VALUES (1, -1), (2, -1);
Transaction 1: START TRANSACTION;
Transaction 1: UPDATE myisam_tbl SET val=val+1 WHERE item=1;
Transaction 1: UPDATE innodb_tbl SET val=( SELECT val FROM myisam_tbl WHERE item=1 ) WHERE item=1;
Transaction 2: START TRANSACTION;
Transaction 2: UPDATE myisam_tbl SET val=val+1 WHERE item=1;
Transaction 2: UPDATE innodb_tbl SET val=( SELECT val FROM myisam_tbl WHERE item=1 ) WHERE