For many millennia, the Great Plains of North America was inhabited by nomadic Native Americans. From the 16th century to 18th century, the Kingdom of France claimed ownership of large parts of North America. In 1762, after the French and Indian War, France secretly ceded New France to Spain, per the Treaty of Fontainebleau.
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19th century
In 1802, Spain returned most of the land to France. In 1803, most of the land for modern day Kansas was acquired by the United States from France as part of the 828,000 square mile Louisiana Purchase for 2.83 cents per acre.
In 1854, the Kansas Territory was organized, then in 1861 Kansas became the 34th U.S. state. In 1855, Marion County was established within the Kansas Territory, which included the land for modern day Hillsboro.
Hillsboro was named after John Gillespie Hill, who homesteaded in the area in 1871. Originally Hill City was the city name; since another city in Kansas already bore that name, it was changed to Hillsboro on June 20, 1879. A post office was established in Risley on April 10, 1873, then moved to Hillsboro on August 29, 1879.
As early as 1875, city leaders of Marion held a meeting to consider a branch railroad from Florence. In 1878, Atchison, Topeka and Santa Fe Railway and parties from Marion and McPherson counties chartered the Marion and McPherson Railway Company. In 1879, a branch line was built from Florence to McPherson; in 1880 it was extended to Lyons and in 1881 was extended to Ellinwood. The line was leased and operated by the Atchison, Topeka and Santa Fe Railway. The line from Florence to Marion was abandoned in 1968. In 1992, the line from Marion to McPherson was sold to Central Kansas Railway. In 1993, after heavy flood damage, the line from Marion through Hillsboro to McPherson was abandoned and removed. The original branch line connected Florence, Marion, Canada, Hillsboro, Lehigh, Canton, Galva, McPherson, Conway, Windom, Little River, Mitchell, Lyons, Chase and Ellinwood.
20th century
In 1908, Tabor College was founded by members of the Mennonite Brethren and Krimmer Mennonite Brethren Christian churches.
The National Old Trails Road, also known as the Ocean-to-Ocean Highway, was established in 1912, and was routed through Lehigh, Hillsboro, Marion and Lost Springs.