Yakimenko climbed four World Cup podiums in the 2006–07 season, including victories in Tunis and Madrid. At the 2007 European Championships in Ghent, he prevailed over Pozdnyakov in the semi-finals, but he was defeated in the final by an unexpected Jorge Pina from Spain and was relegated to the silver medal. Pozdnyakov later commented that Yakimenko had underestimated the Spaniard. In the team event Yakimenko became the second most senior fencer of the team as national coach Boris Pisetsky brought young Veniamin Reshetnikov in the line-up. After a strong beginning in the semi-finals Russia were surprised by Ukraine's comeback. Yakimenko entered the piste on 31–40 and managed 14–4 in his last bout to get his team to the final, where Russia crushed Belarus 45–30, allowing him to claim his 5th European title in a row. Yakimenko earned his second gold medal in the 2007 Summer Universiade in Bangkok, as well as a bronze medal in the team event. In the World Championships at home in Saint-Petersburg, No.1 Yakimenko was defeated by Ukraine's Lukashenko, to whom he had never lost before. In the team event Russia were defeated by Hungary by a single hit in the first round and finished 5th. Yakimenko finished the season World No.1 for the second time of his career.