In separate messages on Tuesday, Dehqan expressed the hope that cooperation and unity among Islamic nations and governments would help security and calm prevail in the Muslim world again.
Eid al-Fitr, also called Feast of Breaking the Fast, is an important religious holiday celebrated by Muslims around the world.
Eid al-Fitr marks the end of Ramadan, the ninth month of the Islamic lunar calendar.
On the day of Eid al-Fitr, Muslims attend prayers in congregation, listen to sermons and give Zakat al-Fitr or donations to the poor.
While a number of Muslim countries celebrated the Eid on Tuesday, most Muslims around the world, including Iranians, will mark the occasion on Wednesday.