On November 10, 2015, Younginer signed a minor league contract with the Atlanta Braves organization.[2] On August 7, 2016, Younginer was selected to the 40-man roster and promoted to the major leagues for the first time.[3] In 8 appearances for Atlanta, he struggled to a 6.43 ERA with 4 strikeouts across 7 innings pitched. On September 3, Younginer was removed from the 40–man roster and sent outright to the Triple–A Gwinnett Braves.[4] He became a free agent following the season on November 7.[5]
Los Angeles Dodgers
On November 17, 2016, Younginer signed a minor league contract with the Los Angeles Dodgers[6] and he was assigned to the Triple-A Oklahoma City Dodgers to begin the season,[7] where he was selected to the mid-season Pacific Coast League all-star team.[8] In 40 games (3 starts) for Oklahoma City, he posted a 4–5 record and 4.76 ERA with 70 strikeouts and 8 saves in 62+1⁄3 innings pitched.[9] He elected free agency following the season on November 6, 2017.[10]
San Francisco Giants
On January 25, 2018, Younginer signed a minor league deal with the San Francisco Giants organization.[11] He was released on June 5.
Los Angeles Dodgers (second stint)
On June 16, 2018, Younginer signed a minor league deal with the Los Angeles Dodgers. He appeared in seven games in the Dodgers farm system, across three levels, before he was released on July 26.