The purpose of the current subclause 72(2) is this: The chair of the commission will receive the reports that the agency heads send to the minister so that she, in turn, can prepare her own assessment of their reporting, in order to include it in her report to the minister, which is tabled in Parliament.
As we understand it, the amendment would cause, as an interim step, the first report from the commissioner and president to the minister to be tabled in Parliament before the minister receives the commission's assessment of the agency's reports, and before she has completed her own annual report.
You are correct. It would create a situation whereby the reports of the agencies to the minister would come before Parliament twice: once without the benefit of the committee's commentary, assessment, aggregation of data and all the rest of that, and again—later in the reporting cycle, as amended—when the full report of the commission is sent to the minister and, in turn, tabled in Parliament.