The National Elections Authority (NEA) said that a very limited number of polling stations were late opening, missing the 9am deadline by up to 20 minutes.
The delays were due to health emergencies preventing the timely arrival of supervising judges.
"The NEA authorized reserve judges to supervise elections at these polling stations, while the remaining polling stations opened at their scheduled time of 9am," the NEA said in a statement.
"No complaints have been received regarding the elections, either by judges or by voters, up to this moment," the NEA said, indicating a "high turnout" at all polling stations across the country.
The elections are being supervised by 18,000 judges, assisted by 110,000 administrative assistants in 13,706 polling stations in all 26 governorates across the country.
President Abdel-Fattal El-Sisi and Moussa Mostafa Moussa, the head of Ghad Party are the two candidates for the highest office in the country.
The vote started today and ends on Wednesday.
The NEA announced Monday the hotline number "19826" for receiving voters' complaints throughout the three days of the presidential elections.
Read Ahram Online's blow by blow coverage of the vote