If I were you, I'd bombard them from every angle at all e-mail addresses, and include the above links;
manila.consappointment@fco.gov.uk
Cons.Manila@fco.gov.uk
visa.manila@fco.gov.uk
CharmaineJoy.Canda@fco.gov.uk
Aileen.Cruz2@fco.gov.uk
I wouldn't normally post these, but I feel for your situation and whilst they are probably in the wrong sections of the Manila Embassy I would imagine that things will be forwarded to the right people.
