Thompson was opposed to the Bill Clinton presidency. In 1994, Thompson helped compile a list of 24 people with some connection to Clinton who had died "under other than natural circumstances". The list was included in a letter to congressional leaders by former Rep. William Dannemeyer who called for hearings on the matter.
In 1993 she produced a videotape entitled Waco, the Big Lie, which contained footage of the siege of the Branch Davidian compound in Waco, Texas and a history of the community. The videotape was distributed widely, and for a short period after its release she was a regular guest on talk radio shows. The film challenged the mainstream news reports of the Branch Davidian siege and created a small sensation, alleging a government cover-up of the events surrounding the siege. Thompson pointed out many inconsistencies in the official story and the government reports, and the hypocrisy of using deadly weapons to "rescue" children from their parents. Thompson also claimed that three BATF agents, whom she alleges were killed by friendly fire during the siege, were all former bodyguards of then-President Clinton and that the friendly fire was actually an assassination ordered by Clinton. In 1994, Thompson produced Waco II, the Big Lie Continues, in which she offered rebuttals to criticisms of her first film.
In 1994 Thompson declared herself "Acting Adjutant General" of the "Unorganized Militia of the United States" and announced plans for an armed march on Washington, D.C. in September of that year. She declared that militiamen would arrest and try for treason in "Citizen's Courts" those Congressional representatives not living up to their oath of office. The proposed march was almost immediately denounced by groups on the right wing, including the John Birch Society, and Thompson subsequently cancelled the march. Later, she was arrested for blocking a Presidential motorcade in Indianapolis. She carried one weapon concealed and also had one in her purse. Both guns were legal and no charges were filed.
Death
Thompson died in St. Petersburg, Florida on May 10, 2009 after overdosing on medication. Her ashes were scattered in the Gulf of Mexico by her husband, in accordance with her last wishes. The medication was posted to her by the United States Department of Veterans Affairs. A lawsuit was lodged on the grounds Thompson had a history of depression and suicidal threats since 2005, but was still mailed a three-month supply of painkillers. Thompson's brother, Stephen Capps, said that the VA should have known better than to send her that much medication.