I would be very surprised if a significant number of Zoroastrians were ever under Ottoman rule. I can't recall this ever being discussed in any of the works I've read, nor can I think of where they would have resided. Do you have reason to think otherwise or were you assuming?

I would also question whether Ottoman tolerance was as exceptional as you suggest. Generally, Zoroastrians were considered "people of the book" by the reasoning that they at least had collections of sacred texts, although this was by no means universal or absolute. Enough Islamic jurists seem to have been aware of Zoroastrian theology to the degree that they understood that they were not "fire-worshippers" and accepted them as worshippers of God. Of course, the whims and fancies of local rulers could be quite another matter, and their experience isn't really generalizable. But I have no reason to believe the Ottomans would have been particularly harsh toward them, if hypothetically they had ruled over Zoroastrian communities.

Ottoman relations with Shia Muslims is a significantly more complex matter that other flairs can handle much better than me.