Here are some more possibles - they were recommended by friends, I haven't done any
other due diligence.

International Rescue Committee
http://www.rescue.org/

Unicef Philippines
http://donate.unicef.ph/campaign/24/typhoon-yolanda-emergency-appeal

Gawad Kalinga
http://www.gk1world.com/typhoon-yolanda

Phil Red Cross (Probably more direct than other red cross orgs).
http://www.redcross.org.ph/donate