Applying for a Canadian Citizenship and a Citizenship certificate are two different things. In the first case is you are not a Canadian and want to become a naturalized citizen of Canada where as the second one you are already a Canadian citizen but need a proof for your citizenship.
For the latter case procedure for passport is different in different countries. In continental Americas (USA and Canada) it seems easy to process/travel through this but many other countries the requirements are different.
So here is the link where you can find all information specifically applies to Philippines:
http://www.canadainternational.gc.ca/philippines/consular_services_consulaires/passports-passeports.aspx?lang=eng&menu_id=37#child
In short, either you can apply for certificate of citizenship and once you get it, apply for passport with it or use the urgent process, approved on merit, before receiving it.
I am/my child is unable to present my/my child's original proof of Canadian citizenship. How can I get a passport to travel?
Proof of Canadian citizenship is required to support each passport application, except if you are eligible for the Adult Passport Renewal Application process.
We highly recommend that you submit an application for proof of citizenship as soon as possible following:
The birth of your child outside Canada, or
If your proof of citizenship is lost, stolen or damaged.
The application for proof of citizenship can be a lengthy process and we urge you to submit the application as soon as possible. If possible, you should consider deferring all travel plans until the certificate is received from the Processing Center in Canada.
Following submission of the citizenship application, if travel plans cannot be deferred, you may submit a fully completed passport application along with all supporting documentation as well as your/your child's proof of travel, such as a confirmed and paid itinerary or an airline ticket, and the receipt confirming submission of the proof of citizenship application as supporting documentation to assess the case. Our passport examiners will assess your case and determine the necessity of issuing a limited validity passport to meet you/your child's travel needs.
For new born children who have not been issued any proof of citizenship, the proof of Canadian citizenship from one of the parents is required in addition to all other supporting documents. Please note that a Limited Validity Passport can only be issued to children aged below two (2) years old who have no proof of Canadian citizenship.
If born outside of Canada, provide one (1) of the following issued by Citizenship and Immigration Canada:
Certificate of citizenship
Certificate of naturalization
Certificate of retention of Canadian citizenship
Certificate of registration of birth abroad
For children, the child's foreign birth certificate that indicates the name(s) of the parent(s) should also be included as proof of parentage.