I don't think thats possible. The greeks used their religion to set them apart from the turks, it was the one thing that united them as a people now that they didn't have a country. Asking them to convert would be like asking them to stop being greeks.
I wish AHP was here to set you guys straight, but in the context of the 1500s this is wrong, wrong, WRONG!
The reason the Balkans, including Greece, stayed largely Christian is because the Ottomans decided to essentially ban proselytizing in Europe. It was somewhat heretical of them, but understandable, given the tax on Christians raised huge revenues which ran the state. Allowing Greeks to become Muslim could have bankrupted the empire. Conversions where they happened were when individuals chose to turn to Islam on their own.
Crete was not considered part of Europe by the Ottomans, thus missionary activities were allowable and commonplace. Ultimately around half of the population converted. They continued to speak Cretan Greek.
For the mass conversion of the Greeks, you'd need a different financial system for the Ottomans which makes proselytizing not so counterproductive. If this happened, it wouldn't be unsurprising if a large minority, even the majority, of Greeks became Muslims. However, similar to Albania and Bosnia, large Christian minorities would probably be interspaced throughout.