Khachaturov joined the Armenia national football team. Beforehand there were issues of his citizenship documents. On 25 January 2013, the Armenian Football Federation announced it received an official letter from FIFA, which states that Khachaturov now has the right to play for the national team.[4] He was quoted as saying his dream has come true and that, "I'm coming home... "[5] Khachaturov made his debut for the Armenia national team on 5 February 2013, in Valence, France in a match against Luxembourg.
After a 5-year absence from National Team action, Khachaturov returned to the senior squad under coach Armen Gyulbudaghyants, being called up for 2018 UEFA Nations League October and November camps, playing two full games in the 4–0 victory over Macedonia and a 2–2 draw against Liechtenstein. The Macedonia game ended up being one of the biggest wins for the Armenia national team in the last years.
^"Арарат отправляется в Сочи". www.fcararat.am (in Armenian). FC Ararat Yerevan. 24 January 2016. Archived from the original on 8 October 2018. Retrieved 25 January 2016.