There are no secret traffic rules at TIndal or Alice. But, there can be an awful lot of confusion and delays for civilian aircraft in the Top End, especially in DN when ATC are training. ATC in Alice is exemplary.
As I understand your position was South of the field and Right of the 32 extended centre line. In this case you could have joined finals, or turned left for Right Base 32. I would have asked to confirm join right base 32? Easy said from the comfort of my lounge chair.
Talk of right downwind when you are East of the 32 centre line and South of the field is very confusing. It's a pity you couldn't get clarification from your phone call.
There is a committee who try to smooth things out and harmonise operations in this joint user airspace. An ASIR outlining your experience might find its way into there hands and help improve the system.