Here are some links to read. NSW has just changed to the Vehicle Safety Compliance Certification Scheme, which changes how you get an engineer's certificate.
FAQ about VSCCS
http://www.rta.nsw.g...s/vsccs_qa.html Here is a link to all the certifiers signed up to VSCCS currently. More will be added over time as more sign up.
http://www.rta.nsw.g..._14_03_2012.pdf Basically, what is going to happen is that you get your car working perfectly (oil leaks fixed, make sure there's nothing blatantly illegal on it, get suspension bushes/etc checked out so they're fine), then you call a bunch of different engineers on that list and have a chat to them about certifying your car.
Some might want to do brake checks, or want you to change the tyres you have, or go for an emissions test or more, but others won't. Some will want to charge you $1500, some will want to charge $100, some will not want to touch your car. Pick an engineer to go with based on what works for you - They'll most likely tell you to change/fix something or other. You can go to any engineer accredited on that list - doesn't have to be the one located closest to you.
They'll want to inspect your car so you'll have to take some time out to do this. They might pick up other stuff you need to fix (tyre placard not right, no bonnet stay, oil breathers venting to atmo, etc) which will mean no certification, go home, fix it and book in again. If you have to do emissions testing (noise or heaven forbid a tailpipe particle-count) they might even send you to one of the big RTA/RMS inspection stations at Botany/Penrith. Hopefully you just do a noise test at a local exhaust shop that is licensed to do it. Once they're satisfied your vehicle is compliant, they'll send the certification off to the RTA/RMS.
I'm not sure if you need to do the "change of details" form for the motor swap BEFORE you get it engineered or after, or if the engineer can do it for you. You should definitely get the engine number listed on your certificate to make it a little easier for yourself. I've done a few of these "COD" forms and the inspector never asked about the FMIC/fuel system/turbo/etc I had on the cars.
If you want to take your car for a safety and identity check blueslip (aka, "put it over the pits) then you're mad. If its already registered, change the engine # details, get it engineered and move on with life.
"Platypus" on here (James) just got his V3-powered Gen2 Outback through this after a noise defect.