Leon Bristedt, Brent Gates Jr. and Tyler Nanne scored in the first, before Rem Pitlick scored two goals in the second period to make it 5-1 Gophers. Minnesota captain Tyler Sheehy scored on a breakaway midway through the third period, then Jack Ramsey scored on a 5-on-3 power play at 15:13.
The Badgers are off next weekend, then close out the regular season with a road series again Big Ten foe Ohio State.
Wisconsin was outshot 36-24 on the night, including a 14-9 deficit in the third period.
They struggled to solve goaltender Mat Robson, who made 23 saves after backstopping Minnesota to a 4-2 win in the series opener. Wisconsin goaltender Jack Berry made just six saves on nine shots in the first before being pulled in favor of Kyle Hayton, who allowed four goals on 27 shots.