Well, depending on how soon Sis gets the GPP cities online, I think we may want to settle the first Great Prophet.
Until we really start spamming Missionaries, we're probably stuck with just our cities as sources of income for the Shrine. Depending on when the Great Prophet pops, we may not even get the same GPT from the Shrine that we do from the Great Prophet. If that's the case (that we're getting about equal amounts of gold from a settled Great Prophet as we would from the Shrine), I vote for settling.
Again, depending on how Sis runs the GPP, we may want a Great Scientist first. I certainly feel that getting a Great Scientist out for an Academy before, or possibly very very shortly after, we tech Civil Service is more important than bringing a Shrine online.
To add to that, now that wonderspam looks unlikely, and we're no longer pursuing religion, I don't think we'll really need the Great Prophets for bulbing.
I'm surprised none of them were farmed for the short term. We need hammers and food now more than we need commerce, though Mecca will emphasize hammers and commerce soon enough (no specialists there).
Madrassas also offer double the culture of a Library, or 4

per turn. Due to city placement, we'll need that extra culture to help keep out Louis.