Kimmel is taking time off while his son undergoes his second heart surgery.
Other guest hosts this week include Jennifer Lawrence, Channing Tatum and Shaquille O'Neal.
A representative for Kimmel said the procedure on the comedian's son was postponed after he came down with a cold.
"Jimmy is very grateful to Shaquille O'Neal, Dave Grohl, Channing Tatum and Jennifer Lawrence for filling his very small shoes as guest host this week while he, his wife and children sneeze on each other."
Tonight won't be Grohl's first time hosting a talk show. In 2013, he filled in for comedian Chelsea Handler and guest hosted her show, "Chelsea Lately," for an entire week.
Foo Fighters' new album, Concrete and Gold, debuted at number 1 in September. The band kicked off a North American tour this month.
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