The youngster was all set to leave on-loan for the new season.
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However, the Daily Mail says those plans have now been ripped up, with Amorim viewing Kone as a first teamer for the coming campaign.
A move to Ineos-owned Lausanne was lined up for Kone, but he is now set to remain with United and be added to the senior squad.
Kone did not get off the bench for United in yesterday's preseason friendly against Leeds in Stockholm, which finished 0-0.