The Lyon County Humane Society was incorporated in May 1971. It was founded by five Emporia women:

Ellen Querner, Lois Kurtz, Rotha Marrs, Sandy Troxell and Vera Harris for the purpose of preventing, investigating and combating cruelty to animals. The society is a not-for-profit organization, chartered by the state of Kansas, with offices in Emporia. It is comprised of a board of directors which governs its policies and makes the major decisions of the society. Income is generated through memberships, donations, memorials, bequests and fund raising activities.

From its founding, calls concerning the wellbeing of animals have been investigated for possible cruelty by a society Cruelty Officer or referred to the proper city or county agency for that situation.

In the earlier years, several society members housed unwanted animals in their homes. These animals were wormed and vaccinated for distemper before being offered for adoption for a small fee.

For various reasons, this was stopped in 1976. The decision was also made at that time to set aside the goal of building a shelter and to concentrate on education and cruelty prevention.

In September 1973, a Women’s Auxiliary was formed to assist in the raising of funds for the society. This group continued to be an active supporting part of the society until they disbanded in 1983.

In October 1980, the original name of the society was changed to the Humane Society of Lyon County Inc., it was felt this change was necessary to clear the misconception that the society was a county agency receiving county or tax money. In 1993 the name was again changed to the Humane Society of the Flint Hills, Inc. to better reflect the fact the society served more than the Lyon County area.

In April 1982, the society began a Spay-Neuter program to implement our conviction that controlling reproduction is a way to help correct the over-population of animals. A $10 per animal rebate is offered to pet owners having the surgery done during the months of February or October. The rebate offer was originally limited to Lyon County residents, but in 1984 was expanded to include residents of Chase, Morris, Osage, Coffey and Greenwood counties. This program was discontinued in March, 2013. In May, 2014, a new Spay-Neuter program, providing financial assistance to low-income families was started. This program continues today.

April 1, 2015, the Humane Society of the Flint Hills assumed management of the Emporia Animal Shelter.