I wouldn't go that far. Actually, the Bush administration is pressuring the Turks because they refuse to recognize the Eastern Orthodox head. They have also closed down churches and seminaries in and around Istanbul.

Here are some of the problems:

"The Orthodox and other religious minorities are anxious to have more control over their finances, to be able to grant work permits to foreign clergy, to freely elect their own leaders and to build and rebuild sanctuaries.

During his visit, Bush said he was satisfied that Turkey will soon let the Orthodox reopen the Halki seminary on Heybeliada Island, which was closed in 1971 under laws strictly controlling all religious education. In addition to training new clergy, this might strengthen two surviving monasteries. This is crucial since, under Turkish law, any monk who is elected Orthodox patriarch must be a Turkish citizen."

This is a good link for a rundown of a few problems:

What if Italy limited the Pope's sacred precinct to the grounds of the Vatican?