Known for his six-hitting prowess, Pant played second fiddle to David Warner (49) in their 67-run stand that steadied Delhi
The 23-year-old, who joined Bayern this season and was named in Spain's World Cup squad on Monday, has been out since March with a different ligament injury in the right knee and was hoping to play in the Cup final against Borussia Dortmund on Saturday.
"This is bitter for Thiago and I feel sorry for him," said Bayern CEO Karl-Heinz Rummenigge in a statement.
"A young man who wanted to come back at the World Cup and suddenly his dreams are burst. We will take care of him now and make sure he is fit at the start of the season."
Spain, winners of the 2010 World Cup, have been drawn in Group B along with Netherlands, Chile and Australia.