Separate Coastal Army
After Operation Barbarossa Kapitokhin was placed at the disposal of the Military Council of the Odessa Defence Region. In August 1941 he was appointed commander of the 161st Rifle Regiment of the 95th Rifle Division in the Separate Coastal Army. In March 1942, he became the commander of the division. Kapitokhin fought in the Siege of Sevastopol and commanded the 4th sector of the city's defences during the final assault. On 4 July he was evacuated by submarine to Novorossiysk. For actions in the defence of Sevastopol, Kapitokhin was awarded the Order of the Red Banner.