On 3 February 2013, Zurich were playing a test match against AC Bellinzona and in to the 72nd minute of the game, it came to a battle between Kukeli and Simon Grether, were Kukeli injured with a tibia and fibula fracture in the leg. It was named as a "horrorr" injury were his leg clearly seen with the naked eye that nearly broke away from other part and went completely in the reverse side. Player slammed into the ground, and colleagues, technical staffs of both teams, as well as over 400 fans in the stadium were shocked and the referee stopped the game immediately. After the intervention of doctors were urgently called ambulances. After about 5 minutes on the field, Kukeli stretcher was taken initially and then was transported to the hospital. After this serious incident, none of the players was not able to play, so the referee rightly canceled it. On January 2014, with came of a fellow Albanian player Armando Sadiku in Zurich, Kukeli returned to the team training. His first match after recovery from the long injury came on 14 January 2014, in a friendly match against MSV Duisburg but there were shown that he was still unrecovered from the injury, as he replaced in the first-half of the match. In the next month February, Kukeli declared that he were returned back at this time in the full-training. On March 2014, media reported that a wrong medication in his leg, resulted to cause him an infectation and he were operated again for the second time and on 28 April when he was ready to came on the pitch, doctors suggested him to make another operation and he come to be operated again for the 3rd time.
Due to injury Kukeli did not play any match and even called-up for the team fixtures, missing in the 2012–13 season second half and also the entire 2013–14 season.
On 11 June 2014 the Zurich coach Urs Meier declared that Kukeli trained again fully with the team among his team-mate Alain Nef, also returned from the injury, also they were back on track as the two veterans recount their long injury lay-offs for us almost as inflows. On 14 June 2014 Kukeli played in the first pre-season test match of the Zurich against Vaduz coming on as a substitute for the second-half in place of Ederson, where the test match finished in the 1–0 victory. On 24 June 2014 Kukeli played as a starter in another test match against Austria Lustenau finished in the 0–2 victory and where Kukeli played only in the first half as he got substituted off for Yapi in the second half.
Kukeli received a call from Albania's coach, Gianni de Biasi in May 2012 for the friendlies against Qatar and Iran, but he declined, because he was too tired at that time and needed rest after the end of the season, however he said that he would respond positively in the future. In August 24, 2012 it was reported that the Albanian government had started the procedures to give him an Albanian citizenship by the end of August 2012, so that he could play for Albania in the qualifiers of the FIFA World Cup 2014. Kukeli debuted in a 3-1 victory against Cyprus on September 7, 2012 by playing 90 minutes.