Most of the bill deals with creating a robust, transparent system of regulation for setting the Farmgate Milk Price, the calculation at the heart of the way the cooperative determines its 10,500 farmers' income from their dairying operations.
Farmers fear the FMP could be manipulated by investors in the tradable units to favour dividends, rather than payouts to farmers based on milk production, and the new process is intended to prevent that.
The Labour and Green parties both issued dissenting minority reports, with the Labour position supported by New Zealand First, and the Greens arguing opportunities had been lost to incentivise sustainable dairy production in the new capital structure.
Labour questioned the need for TAF and criticised how little time it said the select committee had to consider the draft legislation, whose passage is one of five "bottom line" necessities for TAF to go ahead.
Labour argued the bill should contain provisions limiting "the proportion of Fonterra share securities that can be traded in the market by non-suppliers."
Fonterra will ask farmer shareholders to enshrine constitutionally an upper limit of 20 per cent for the Fonterra Shareholders Fund, although it would be managed within a seven to 12 per cent range as a matter of policy, with a fully disclosed process when those thresholds are breached.
Nonetheless, Labour said this "could lead to pressure to demutualise the company. We believe such a protection for the co-operative is needed in law."
A Fonterra spokeswoman said the company was studying the report-back before commenting.