The land, far back into pre-history, was shared and used mainly by the Tonkawa and sometime the Karankawa Indians. They hunted and lived in the area for hundreds, maybe thousands of years before the first white men appeared. The near by river bottom was full of small game and the prairies abounded with all types of foul, deer, antelope and buffalo.
The Spanish explorer Cabeza de Vaca was apparently the first white man to come through Pine Island area of Texas. In 1528, after his ship wrecked on Galveston Island (which he named "Misfortune Island"), he became a trader among the indians. He worked the southern part of east Texas for about six years, trading with the indian tribes, before he made the overland journey back to Mexico.
Spain took no further interest in Texas for nearly one hundred and fifty years when the first few spanish settlements started appearing north of the Rio Grande around 1660. But, even then the Waller County area missed the invasion of outsiders for another hundred and fifty years.
The Spanish began operating missions in the San Antonio area and in east Texas at Nacogdoches. Although the "Old San Antonio Road" between the two areas crossed the Brazos river, their route was further north near the current Bryan-College Station area.
Rene Robert Cavelier, Sieur de la Salle attempted to found a french settlement called Fort St. Louis in 1665. It was located possibly on Garcitas Creek. It was located a considerable distance inland from Matagorda Bay, presumably to fool the Spanish into thinking they had left. La Salle made a number of exploratory trips through southeast Texas and some of the maps show a route that appears to go through the Pine Island area. There is a statue of la Salle in Navasota, Texas showing his presence in that part of Texas. la Salle was killed on the last trip and Fort Saint Louis was wiped out by indians Other than a few more exploration trips by the Spanish explorers like Coronado, Moscoso and Onate, After Mexico won it's independence from Spain in 1821, it still lacked interest in Texas and decided to let colonists from the United States settle the far away wilderness of their new land.
The first permanent outsiders did not arrive and settle in the Pine Island area until the early 1820's when Spain broke a 300 year old tradition of not allowing foreigners to live within it's boundaries. By then Spain was grasping at straws for a way to help control the Comanche Indians. The Comanches were regularly raiding San Antonio and making life in Spanish Texas very difficult.
At the same time Moses Austin, a victim of the first United States depression, lost his money in a Saint Louis bank failure. Moses went to Mexico and secured a grant to colonize Texas as a means to recoup his losses. After returning home in 1821 Moses died and his son Stephen F. Austin was recognized by Spain as the heir to the contract with the Spanish Government. Stephen F. Austin brought the first foreign group of colonists, called "The Old Three Hundred", to Texas and settled them in the area between the Brazos and Colorado rivers.
After Texas gained it's freedom from Mexico in1836,.Austin County included the land on both sides of the Brazos River. It was however, a very long trip to the county courthouse in Bellville from the farms and towns on the east side of the river. And, when the river was in flood stage the trip was almost impossible. So on May 1, 1873 the Texas Legislature passed an act that took all of Austin County, on the east side of the Brazos river, part of Montgomery County and part of Harris County and created Waller County.
The new county was named for Edwin Waller, a signer of the Texas Declaration of Independence.