Baylor University

In 1841, 35 delegates to the Union Baptist Association meeting voted to adopt the suggestion of William Milton Tryon and R. E. B. Baylor to establish a Baptist university in Texas, then called the Republic of Texas (a republic independent of the United States). Baylor, a Texas district judge and onetime US congressman and soldier from Alabama, became the school's namesake. Some at first wished to name the new university "San Jacinto" to recognize the victory which enabled the Texans to become an independent nation, then before the final vote of the Congress, the petitioners requested the university be named in honor of Baylor.

In fall 1844, the Texas Baptist Education Society petitioned the Congress of the Republic of Texas to charter a Baptist university. Republic President Anson Jones signed the Act of Congress on February 1, 1845, officially establishing Baylor University. The founders built the original university campus in Independence, Texas. The James Huckins, the first Southern Baptist missionary to Texas, was Baylor's first full-time fundraiser. He is considered the third founding father of the university. Although these three men are credited as being the founders of the university, many others worked to see the university established in Texas and thus they were awarded Baylor's Founders Medal. The noted Texas revolutionary war leader and hero Sam Houston gave the first $5,000 donation to start the university. In 1854, Houston was also baptized by Rufus Columbus Burleson, future Baylor president, in the Brazos River.

During the 1846 school year Baylor leaders would begin including chapel as part of the Baylor educational experience. The tradition continues today and has been a part of the life of students for over 160 years. In 1849, R. E. B. Baylor and Abner S. Lipscomb of the Texas Supreme Court began teaching classes in the "science of law", making Baylor the first in Texas and the second university west of the Mississippi to teach law. During this time Stephen Decatur Rowe would earn the first degree awarded by Baylor. He would be followed by the first female graduate, Mary Kavanaugh Gentry, in 1855.

In 1851, Baylor's second president, Rufus Columbus Burleson, decided to separate the students by sex, making the Baylor Female College an independent and separate institution. Baylor University became an all-male institution. During this time, Baylor thrived as the only university west of the Mississippi offering instruction in law, mathematics, and medicine. At the time a Baylor education cost around $8–15 per term for tuition. And many of the early leaders of the Republic of Texas, such as Sam Houston, would later send their children to Baylor to be educated. Some of those early students were Temple Lea Houston, son of President Sam Houston, a famous western gun-fighter and attorney; and Lawrence Sullivan "Sul" Ross famous Confederate general and later President of Texas A&M University.

For the first half of the American Civil War, the Baylor president was George Washington Baines, maternal great-grandfather of the future US president, Lyndon B. Johnson. He worked vigorously to sustain the university during the Civil War, when male students left their studies to enlist in the Confederate Army. Following the war, the city of Independence slowly declined, primarily caused by the rise of neighboring cities being serviced by the Santa Fe Railroad. Because Independence lacked a railroad line, university fathers began searching for a location to build a new campus.

In 1885, Baylor University rechartered, and moved to Waco, Texas. Where it was absorbed into a local college called Waco University. At the time, Burleson, Baylor's second president, was serving as the local college's president. That same year, the Baylor Female College also was moved to a new location, Belton, Texas. It later became known as the University of Mary Hardin-Baylor. A Baylor College Park still exists in Independence in memory of the college's history there. Around 1887, Baylor University began readmitting women and became coeducational again.

In the 1890s, William Cowper Brann published the highly successful Iconoclast newspaper in Waco. One of his targets was Baylor University. Brann revealed Baylor officials had been importing South American children recruited by missionaries and making house-servants out of them. Brann was shot in the back by Tom Davis, a Baylor supporter. Brann then wheeled, drew his pistol, and killed Davis. Brann was helped home by his friends, and died there of his wounds.

In 1900, three physicians founded the University of Dallas Medical Department in Dallas, although a university by that name did not exist. In 1903, Baylor University acquired the medical school, which became known as the Baylor College of Medicine, while remaining in Dallas. In 1943, Dallas civic leaders offered to build larger facilities for the university in a new medical center if the College of Medicine would surrender its denominational alliances with the Baptist state convention. The Baylor administration refused the offer and, with funding from the M. D. Anderson Foundation and others, moved the College of Medicine to Houston. In 1969, the Baylor College of Medicine became technically independent from Baylor University. The two institutions still maintain strong links and Baylor still elects around 25 percent of the medical school's regents. They also share academic links and combine in research efforts.

In 2005, the university was invited to join the Collider Detector at Fermilab (CDF) collaboration at the Fermi National Accelerator Laboratory in Batavia, Illinois. The project is one of the world's largest experimental physics collaborations. The following year, the university was classified as "Research University" with "High Research Activity". In 2021, the university was classified among "R1: Doctoral universities with very high research activity".

In October 2009, a group of state, county and city governments and organizations and higher educational institutions in Central Texas announced the creation of the Central Texas Technology and Research Park, and the park's first project, the Baylor Research and Innovation Collaborative (BRIC) to be housed in the former General Tire facility on South Loop Drive in Waco. Funding for the effort came from the state of Texas and Baylor University. Clifton Robinson (a member of Baylor's Board of Regents) donated the facility to the university to support the research collaborative.

Several former and present members of faculty at Baylor are or were prominent proponents of intelligent design, most notably philosopher William Dembski, now at Southwestern Baptist Theological Seminary, Christian philosopher Francis Beckwith and electrical engineer Robert J. Marks II.

The university's endowment passed $1 billion in 2007 and reached $1,055,478,000 on December 31, 2007. Even with the 2008 financial crisis, Baylor's endowment grew 5.1% in the fiscal year ending June 30, 2008; the National Association of College and University Business Officials estimated that during that same period, the median return for the top 25 percent of college endowments decreased by 2.2 percent. Fogleman cited the university's long-term investments and diversified holdings as the cause of the endowment's success. Despite a hired consulting firm's concerns that the troubled economy and disagreements within the Baylor community could hinder continued growth, the university's endowment exceeded $1.1 billion as of May 2013.