MySQL 5.6 – Why INSERT SELECT Blocks Unrelated Table

After your query runs, you'll have a set of copied rows (with configid=41) and an identical set of pasted rows (except for the configid=76 and the auto-created id).

Since, these ids are not known in advance, you'll need another way to identify rows of the config table, e.g. a unique key (besides the auto-incrementing one), so you can match (join) the newly created rows with the old ones.

If, for example, the (configid, optionname) is unique, then the following would work:

INSERT INTO pricing
    ( relid, price, ... )          --- relid and all the other columns, 
                                   --- except any autoincrement you may have
SELECT pasted.id, p.price, ....    --- and the same columns here
FROM 
    pricing AS p
  JOIN
    tblproductconfigoptionssub AS copied
      ON  copied.id = p.relid
      AND copied.configid = 41 
  JOIN
    tblproductconfigoptionssub AS pasted
      ON  pasted.optioname = copied.optioname
      AND pasted.configid = 76 ;

Assuming you have some tables for Persons, Animals:

CREATE TABLE Person
  ( PersonID INT UNSIGNED NOT NULL AUTO_INCREMENT
  , PersonName VARCHAR(255) NOT NULL
  , CONSTRAINT Person_PK
      PRIMARY KEY (PersonID)
  , CONSTRAINT PersonName_UQ 
      UNIQUE (PersonName)
  ) ;

CREATE TABLE Animal
  ( AnimalID INT UNSIGNED NOT NULL AUTO_INCREMENT
  , AnimalName VARCHAR(255) NOT NULL
  , CONSTRAINT Animal_PK
      PRIMARY KEY (AnimalID)
  , CONSTRAINT AnimalName_UQ 
      UNIQUE (AnimalName)
  ) ;

and results:

CREATE TABLE Result
  ( RaceID INT UNSIGNED NOT NULL
  , Position INT UNSIGNED NOT NULL
  , PersonID INT UNSIGNED NOT NULL 
  , AnimalID INT UNSIGNED NOT NULL
  , Errors INT UNSIGNED NOT NULL DEFAULT 0
  , CompletionTime Time NULL DEFAULT NULL

  , CONSTRAINT Result_PK
      PRIMARY KEY (RaceID, Position)

  , CONSTRAINT Race_Person_UQ           -- assuming a Person cannot enter
      UNIQUE (RaceID, PersonID)                 -- a race twice

  , CONSTRAINT Race_Animal_UQ           -- assuming an Animal cannot enter
      UNIQUE (RaceID, AnimalID)                 -- a race twice

  , INDEX PersonID_IX (PersonID)                -- indexes for the Foreign Key
  , INDEX AnimalID_IX (AnimalID)                -- constraints:

  , CONSTRAINT Person_Result_FK     
      FOREIGN KEY (PersonID)
      REFERENCES Person (PersonID)
  , CONSTRAINT Animal_Result_FK     
      FOREIGN KEY (AnimalID)
      REFERENCES Animal (AnimalID)
  ) ;

I suggest you first bulk load the data (possibly with LOAD DATA from .txt or .csv files) in a table in MySQL (supplying race IDS. If you can't supply raceIDs but you have race names, the tables should be adjusted accordingly). You should have a Race table as well, this is just a sample procedure:

CREATE TABLE BulkData
  ( RaceID INT UNSIGNED NOT NULL
  , Position INT UNSIGNED NOT NULL
  , PersonName VARCHAR(255) NOT NULL
  , AnimalName VARCHAR(255) NOT NULL
  , Errors INT UNSIGNED NOT NULL DEFAULT 0          -- adjust datatypes according
  , CompletionTime Time NULL DEFAULT NULL           -- to your data
  ) ;

LOAD DATA INFILE '/results.txt' 
    INTO TABLE BulkData
    FIELDS TERMINATED BY ',' 
           ENCLOSED BY '"'
    LINES TERMINATED BY '\r\n' ;

Then you can manipulate them and insert them into the 2-3 tables. For Person:

INSERT INTO Person
    (PersonName)
SELECT DISTINCT
    b.PersonName
FROM
    BulkData AS b
WHERE NOT EXISTS
    ( SELECT 1
      FROM Person AS p
      WHERE p.PersonName = b.PersonName
    ) ;

Similar for Animal:

INSERT INTO Animal
    (AnimalName)
SELECT DISTINCT
    b.AnimalName
FROM
    BulkData AS b
WHERE NOT EXISTS
    ( SELECT 1
      FROM Animal AS a
      WHERE a.AnimalName = b.AnimalName
    ) ;

And then in Result:

INSERT INTO Result
    (RaceID, Position, PersonID, AnimalID, Errors, CompletionTime)
SELECT 
    b.RaceID, b.Position, p.PersonID, a.AnimalID, b.Errors, b.CompletionTime
FROM
    BulkData AS b
  JOIN
    Person AS p  ON p.PersonName = b.PersonName
  JOIN 
    Animal AS a  ON a.AnimalName = b.AnimalName
WHERE NOT EXISTS
    ( SELECT 1
      FROM Result AS r
      WHERE r.RaceID = b.RaceID
        AND r.PositionID = b.PositionID
    ) ;

If the importing results are satisfying, then you can empty the BulkData table and repeat the procedure with more files. The NOT EXISTS conditions will take care and not allow duplicates even if you try to load same data twice.