Schweinsteiger, who missed much of the season with an ankle problem but has been named in Germany's provisional 30-man squad for next month's World Cup, suffered inflammation in his left knee and will be training alone for a few days.
The player was taken off after 37 minutes of Bayern's Bundesliga season finale on Saturday, a 1-0 win over VfB Stuttgart.
"He has to reduce training intensity for a few days and will have an individual training programme," Bayern said in a statement on Monday.
Schweinsteiger is hoping to be fit for Germany's pre-World Cup training camp starting on May 21. Coach Joachim Loew has to finalise his 23-man squad by June 2.
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