Kante has been cleared to leave Al-Ittihad for Fener after a deadline day switch collapsed.
An appeal to FIFA was also rejected after it was ruled that while an agreement had been struck, the necessary paperwork was not submitted in time.
However, Fenerbahce confirmed on Wednesday that the issue had been resolved and that Kante had joined the club after two and a half years in Saudi Arabia.
The intervention of Turkish president Recep Tayyip Erdogan was key to the transfer being resolved in Kante and Fener's favour.
Fener president Sadettin Saran said this morning: "Our club has successfully completed the transfer process of N’Golo Kanté, a prominent figure in world football.
"I would like to thank our President Recep Tayyip Erdoğan on behalf of myself and my club for their significant support to the positive outcome of this process, which will contribute to the development of both our Fenerbahçe and Turkish football.
"It should be known that during this process, the belief in the club of the great Fenerbahçe fans, the strong support it shows and the trust that it feels with us has been the greatest source of motivation and power for us.
"Now it's time to get that power to the field, to be with our team.
"Together we will believe, we will fight together and we will succeed together."