The Blues' bid to buy the unsettled England striker has been one of the summer's longest-running transfer sagas, but the deal appeared to be over after Rooney publicly thanked the United fans for a warm reception while playing against Mourinho's men at Old Trafford on Monday.
And while the 50-year-old coach has failed in his attempts to lure David Moyes' player to Stamford Bridge, he says new signing Eto'o - who he worked with previously at Inter - will give his forward line some much-needed experience.
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"It's the end [of our business]. We have a good group and Samuel [Eto'o] will give us other kind of qualities in attack - an experienced player in a team that needs some experienced players."
Mourinho insists he is not disappointed with Rooney's decision not to hand in a transfer request at United, suggesting the player has to do what he feels is right for his career and his life.
"No. I feel it's alright," he continued. "Everyone has to show his life, his future, so for me, I respect that a lot."