In addition to footbridges, the platforms are connected by slopes and level crossings making them wheelchair accessible.The station has a Midori no Madoguchi staffed ticket office and there is a Yufuin Onsen tourist information center within the station building.

It has a wooden, black-painted exterior, with a 12 meter high open concourse in the center, and an adjacent waiting room that doubles as an event hall.

The concourse and platform can be separated by large, thick glass doors to prevent wind, and the waiting room has floor heating equipment that uses hot spring water.

By 1923, the track had reached Yunohira and then, on 29 July 1925, Yufuin (then known as Kita-Yufuin) was established as the new western terminus.

With the privatization of Japanese National Railways (JNR), the successor of JGR, on 1 April 1987, the station came under the control of JR Kyushu.