I would think this was caused by some data in the Database being interpreted incorrectly.
First, Export the database one table at a time rather then the whole DB at 1 go, helpfully this will help you pinpoint which table is having the problem.
Once you pinpoint the table that is causing the problem, try different export settings, try using a CSV export, and [playing with the termination characters.
If all else fails, try using a different GUI Tool like Sequel Pro or Heidi SQL