Ok. So the short of it is, I was trying to do an INSERT SELECT such as:
START TRANSACTION;
INSERT INTO dbNEW.entity (commonName, surname)
SELECT namefirs
For the last query, use this
INSERT INTO dbNEW.`user` (userID, entityID, other)
SELECT user_id, entityID, other
FROM
(
SELECT user_id, @key + @rn entityID, other, @rn := @rn + 1
FROM (select @rn:=0) x, dbOLD.`user`
order by user_id
) y;
The LAST_INSERT_ID() in MySQL is the FIRST id created in a batch, unlike SCOPE_IDENTITY() in SQL Server which is the LAST id. Since it is the first, we increment each row using the variable @rn, starting at addition=0 for the first row.