Reports this week suggest that the United star could be rested for Saturday's clash at the Reebok Stadium because of a knee injury.
The England International has hit 33 goals this season and with United involved in Champions League action next Tuesday, Sir Alex Ferguson may decide against risking Rooney's fitness.
And Coyle, battling to keep Bolton in the Premier League, admitted that avoiding Rooney will be a big boost to his team.
"If you're asking me whether I am glad Wayne Rooney might not be in the team, then of course I am. I'd rather not face him," Coyle told the Bolton News.
"Along with Cristiano Ronaldo and Lionel Messi he's one of the top three players in the whole world at the moment.
"So any manager would be glad of the chance not to face him, if indeed that proves to be the case.
"But United have a team full of quality international players, so we know we'll have to be at our very best, no matter what happens."
But the former Burnley boss says he still wants to see Rooney fit for England ahead of this summer's World Cup.
"England are very fortunate to have someone of Wayne's stature and I'm sure he will go on to do very well in the World Cup.
"He has been in terrific form this season, so if he can take that into the summer then I am sure he will do an excellent job for his country."
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