The Magistrate Judge assigned to a case handles all non-dispositive motions until discovery concludes and a "bright-line" notice is issued. A list of what motions are considered non-dispositive is available at http://www.innd.uscourts.gov/sites/innd/files/DispositiveLogic.pdf.
After a bright-line notice has been issued, the Magistrate Judge handles only motions to continue trial.