Ok, last bit of correspondence on this issue. After receiving my booking and having everything ticketed I decided to write an email through my direct contact at QF regarding the problems I faced. I didn't want my experience to become commonplace and I was hoping that detailing my issues in an email would help QF realise what problems they need to address from the customers perspective. These can often be futile exercises but I'm making the most of my contacts effort to respond.
Without going into too much detail I listed 3 main issues: the QR canceling booking's issue, the not notifying me of a cancellation that I didn't make and the inconsistent customer service I received. QF contacted me today and said that yes, they are having issues with QR and it was being worked on however QF still admitted fault in my case. They also mentioned that it is difficult to send out cancellation notices and they are dealt with individually and prioritised accordingly. The last bit about customer service QF apologised and stated that dealing with multiple members of staff will yield different results.
Not very satisfactory answers and there seems like some simple solutions that I tried to convey but it's hard to get a word in sometimes. In the end I was just happy to leave things the way they are. I have let QF know how I felt about this entire episode, it's up to them how they want to use that information.
I also asked if QF would let me visit the First Class Lounge in Sydney to begin my trip next year. The person I spoke to said they couldn't provide me with First Class, but seeing as though we didn't have access to the Business Lounge, they'd send me out some Business Lounge passes. Even though I'm fairly certain QR in J from SYD will give me access to the lounge, I graciously accepted the offer.