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Yes, part of your joint refund will be taken for the child support.  

Form 8379 is filed by one spouse (the injured spouse) on a jointly filed tax return when the joint overpayment was (or is expected to be) applied (offset) to a past-due obligation of the other spouse. By filing Form 8379, the injured spouse may be able to get back his or her share of the joint refund.  If you include the Injured Spouse Form with your return it can take the IRS 11 to 14 weeks to process your return