I just spoke to "J" from the Moonie Ponds ATO office. I asked if there was further documentation on this matter but she said that there was none as these matters had not really been considered and that I should write in to get the advice in writing.
She stated that -
Rental Income - is added to your other assessable income to work out the Total Income. No rental deductions are allowed in working out the total income. So if you earn a gross salary of $28,000 and have $50,000 in rental income and $60,000 in rental deductions, your "total" income is $78,000.
Partnership Income - The profit is added to your assessable income. But if the partnership has a loss, the partnership loss is treated as being zero for the purposes of this test.
As for rental property partnerships and if you can have them, you have a wonderful statement in TR93/32 which states that in "the extended income tax definition of partnership, it is not necessary that persons carry on a business for their association to be treated as a partnership for income tax purposes. They need only to be in receipt of income jointly. Therefore, co-owners of rental property come within the definition of "partnership" for income tax purposes, not because they are necessarily partners at general law, but because they are in receipt of income jointly."
In other words, you can have a partnership of rental properties in a "P" return. I would also recommend that you consider TR94/8 and TR93/32 and ensure you have such things as a partnership agreement and perhaps minutes to explain the formalising of your co-ownership into a partnership for tax purposes. But do remember that Part 4A will be hanging over your heads at all times and that you can't escape that.
Its a bit of a storm in a teacup for the ATO to get back $3,000, but you never know.
Just remember that the above responses are not "formal" documented responses and the ATO are not bound by them but they sound about right to me. I'd be putting in writing questions to send to the ATO. And I disclaim any responsibility for reliance on this advice.