I think you'll still have difficulty with centrelink & CSA. If the child isn't your partners, you'll need to claim CSA officially from the bio father, or you will only be entitled to minimum FTB payments. I really don't think the name will have much to do with anything.
C'link will assume the baby is your partners, I guess, but if he doesn't want his name on the birth cert, will he be ok with that?
Like I said, you'll need to speak someone who knows a bit more about that side of things.
Do it now, because changing it later is a PITA and you will have to go through deed poll I think and you will have to pay for everything twice - two lots of birth certificate. There is no law saying you can't do it now, so why go through the hassle of doing it one way and then having to change it all - especially with centerlink etc.
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