DoD published its 2013 Annual Industrial Capabilities Report to Congress. Within this report, DoD describes counterfeit electronic parts as “one of the worst trends to emerge in military systems spare parts”. The section on CY2012 Industrial Capability Assessments includes a discussion on counterfeit prevention.
The only specific area I find where DoD reports its use of industrial capability toward counterfeit prevention concerns DLA’s application of DNA marking as an “authenticity” taggant for microcircuits. This report does not discuss areas relevant to expectation of DoD described within Section 818 of the NDAA for FY2012, such as the use of industrial capability for training personnel, ensuring traceability of parts (other than DNA marking), and inspecting and testing parts [see NDAA2012 Sec 818(b)(2)].
A copy of DoD’s full report is available here.