Brown signed a six-year, 19,050,000 contract, the school announced Saturday.
"On behalf of my wife, Brooke, and our children, Adalyn, Anslee and Dax, we are thrilled to join the Mountaineer Football Family and become a part of Mountaineer Nation," Brown said in a release.
Brown is one of just six FBS coaches to win 10 or more games in each of the last three seasons.
Brown has spent the last four seasons as the head coach at Troy University in Alabama. During that time, Brown lead the Trojans to a 35-16 record and was 3-0 in bowl games. Over the past three seasons, the Trojans went 31-8 and was tied for the highest winning percentage amount FBS schools (.795).
"I am excited that Neal Brown and his family have decided to call West Virginia University their next home,"Director of Athletics Shane Lyons said in a news release. "When I started this national search, I learned very quickly that he checked all the boxes of what I was looking for in our next football coach. There is no question that the Mountaineers are West Virginia's team, and I know our fans are going to love his energy, passion, work ethic and excitement that he is going to bring to our program. I look forward to working together and supporting him and his staff to bring championships to Morgantown."
Brown's hire comes five years to the day that Lyons was named the school's director of athletics.
Under Brown, Troy won the 2017 Sun Belt title game and also went on the road to defeat Nebraska and then-No. 22 LSU.
As the head coach at Troy, Brown faced seven bowl teams and was 6-1 in those contests.
Brown is also no stranger to the Big 12. He served as the offensive coordinator and quarterbacks coach for Texas Tech from 2010 to 2012. Under Brown, the Red Raiders offense ranked in the top-seven in passing offense, top-15 in total offense and top-25 in scoring offense.
Brown, a native of Danville, Ky., will take over the reins from Dana Holgorsen, who led the WVU program for eight seasons and was officially welcomed Thursday as the head coach at the University of Houston. The Mountaineers were 61-41 overall and 38-32 in conference play under Holgorsen.
Holgorsen is second on WVU’s all-time coaching wins list behind College Football Hall of Famer Don Nehlan, who lead the Mountaineers to 149 wins. Holgorsen led the Mountaineers to seven bowl games in his eight years. WVU is 2-5 in bowl games under Holgorsen.
Brown's first game as the Mountaineer's head coach will be on Aug. 31 when the Mountaineer's take on James Madison.