To fix the problem related with the consistency between the tables (read danielj comment), I recommend replacing those lines :

### Create dir for each databases, backup tables in individual files ###
  mkdir $BACKUP/$NOW/$db
  FILE=$BACKUP/$NOW/$db/$db.sql.gz
  echo $i; $MYSQLDUMP --add-drop-table --allow-keywords -q -c -u $MUSER -h  $MHOST -p$MPASS $db $i | $GZIP -9 > $FILE
done

### Compress all tables in one nice file to upload ###

Instead of creating a backup of individual tables, it will create individual databases backups. You can open the .sql file afterward in your favorite text editor and retreive tables data if needed.