The 1mz A541E has seperate fills and seperate drains but I think the transaxel share a common vent in the differential area. I mean you can't seal a diff and not give it a vent as the pressure changes at different temperature and elavations plus fluid expands and contracts so they both need a vent.
The drawings I have don't show this well enough to give a solid answer so that is simply my best guess.
What I do know is I pulled the plug on the diff and it drained for like a day!

I thought. . . So I plugged it, filled it. Life is good right? Wrong! Chekced the dipper on the tranzzzzzz and sure as sheep jump fences it was low! They be connected either via vent, a bad seal, or desgin. It ainn't leaked any or burned up so who cares???
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95 Cam, V6 1MZ, Auto A541E, LE >245,000 miles!