Hi klitz24. Gather all files about your daughter and the current status of your daughter's mom. Both of you were never married, so get your daughter's birth certificate (original from NSO), it should state there that she is illegitimate (born year 2000, right? So I am assuming your daughter is carrying her mother's maiden name). Is your name in her birth certificate as her biological father? And do you have your signature consenting you are the father on the 2nd page of her birth certificate? If you do, you need all of those, and her mother's current status, a letter explaining both your situation, the consent letter from her that she does not object you petitioning her (notarized) - which you said you have that consent already, so that would be the IMM 5604 (or the Declaration from the Non-Accompanying Parent). That should be notarized, and it should accompany a letter from the mother and a copy of her valid id. That letter needs to state the reasons why she approves of your daughter going to Canada. She has to state that there was never an arrangement of custody between the two of you (and if ever there was, both of you need to explain all of those). You need to prepare an explanation letter yourself of how you went about the last 12 years of your daughter's life, did you ever support her, did you ever contact her, did you spend the first so-so years with her, etc. You have to notarize all explanation letters. If you ever had pictures of you and your daughter, you need to include those. If for the past 12 years, you were never there in her life, then that would post a more complicated matter because a mother will not give away her child to the biological father who was never involved with the child since birth (theoretically), unless a situation calls for, like anything is possible here in the Philippines -- like the mother can not give a good life to her child and consents to have her petitioned by the biological father who can provide better.
Whatever your situation is, you need a clearance from DSWD about this. I've never heard of custody battle in the Philippines, but it is always the mother who has the right to a child here in our country. A mother can travel with her child without clearance from DSWD. Chances are, mother and daughter will need to go through DSWD about this - with you, for that clearance or any document from them giving you the right to get your daughter away from the mother. Call up DSWD about it. Perhaps mother and daughter can sort that out in DSWD without you, maybe not. Maybe DSWD would want to see the father if you were never in her life and then suddenly appears after 12 years. DSWD would want to make sure this is not child trafikking. And they drill questions regarding mother and father's intent to have the child go out of the country. Whatever it is, I am just informing you of what I think I know, I may be wrong. We have the same situation, except I am the mother of a child out of wedlock, and my 12-year old daughter was always with me, so I never had a problem. I just needed to pass that consent to travel from the biological father and his letter to go with that form. Later on, they asked for my explanation letter regarding my previous relationship with the biological father - to which I didn't need to notarize, by the way.
Another thing - I am presuming you are in Canada now (taking it from your sentence "And an affidavit of consent as well that no objection of migrating here in canada"), so the question is - what was your status upon entering in Canada? (Like PR, FWS, etc) And what is your status now? (PR, Citizen?) Did you ever declare that you had a daughter upon entering in Canada? Because if you didn't, then that alone would be a problem even before passing all those documents, because it is a case of misrepresentation. Unless you entered Canada without that declaration because they never asked, then go ahead and pass whatever you can to beat your deadline, as what Truongan said.
Now, if you are somewhere else and not in Canada, then go ahead and pass all those that I've said, plus the DSWD clearance or whatever document you can get from them - in replacement of the "proof of full custody" (if you ever supported her and sent her money, include proof of sending remittances too or gifts, etc. Anything that ties you with your child). If you have photos of bonding with your daughter's family, like being with the grandmom for instance, include all of those too. If you don't have time, and the mother doesn't have time to do all of the DSWD stuff, the DSWD part can be done later on - because even if CIC won't ask for this anymore, you will still need that for your daughter to get out of the country.