An apparatus of controlling starting of an engine may include a starter, an electronic clutch mounted between the engine and a transmission, a gear position detector, a clutch controller configured to control the electronic clutch, receive the gear stage position data from the gear position detector, and generate a gear stage status data, and a vehicle controller connected to the clutch controller through a vehicle communication network, and configured to receive start signal, determine whether the vehicle communication network and the clutch controller are normal, receive the gear position data from the gear position detector and the gear stage status data from the clutch controller when the vehicle communication network and the clutch controller are determined to be normal, and operate the starter to start the engine based on the gear stage status data and the gear position data.