Late in the game but I'm sure there will be other people with the same problem. I just figured it out right now.
Basically what I had to do was create a custom destination, select that custom destination and on the Inspector window I modified the "Output Filename Template:" By default it appears as "Source Media Name-Setting Name".
Put your cursor in front of "-Setting Name"and delete it.
Save your changes, apply your custom destination to your Job and that's it.
Every time you do this to your custom destinations, your output file name will not have your setting's name.
Hope that helps.
Miguel