White Sox manager Robin Ventura challenged the ruling, but the inning ended after the replay with the Twins still leading by one, 7-6.
"Yeah, that was huge," Minnesota manager Ron Gardenhire said. "A couple times already in the game we've thrown trying to get a guy at home plate and all we needed to do was throw the ball to second to keep the man on first.
"That just puts more people in scoring position. Nunez picked the ball up and did the right thing with the baseball and we end up getting Eaton. Earlier in the game, we had the same opportunity and we threw the ball the wrong way. Those are little mistakes, but they all add up."
While the play appeared close via numerous replays, Ventura couldn't pass up the chance to challenge with his team down by just the one run and Gordon Beckham (two hits), Jose Abreu and Alexei Ramirez (homer, two RBIs) next up in the lineup.
The Twins would go on to win the game, 8-6, to even the three-game series.
Scott Merkin is a reporter for MLB.com. Read his blog, Merk's Works, and follow him on Twitter @scottmerkin. This story was not subject to the approval of Major League Baseball or its clubs.