Update: Puno resigns. http://www.interaksyon.com/article/42864/dilg-usec-puno-resigns

Speaking to media on the sidelines of the summit of the Asia Pacific Economic Cooperation in Vladivostok, Russia, Aquino disclosed: “Sometime in the early evening (Aug. 18), tumawag sa atin si Secretary Leila de Lima at pinaalalang may mga confidential folders si Secretary Robredo that needed to be secured. I instructed him (Puno) to seal the office of Secretary Robredo to ensure that ‘yung all of these records will be left intact. And that is the extent of the instructions that I gave to him.”
Transcript of the Vladivostok press briefing:
http://www.gov.ph/2012/09/10/for-the-record-interview-with-president-aquino-on-usec-puno-in-vladivostok-russia-on-september-8-2012/