Her political activities again focused on enhancing the role of women in society and preserving Czechoslovakia's democratic institutions. Shortly after the Communist coup in February 1948, she resigned from the parliament in protest. Unlike many of her political associates, Horáková chose not to leave Czechoslovakia for the West, and continued to be politically active in Prague. On 27 September 1949, she was arrested and accused of being the leader of an alleged plot to overthrow the Communist regime.