Voters approved for a bond issue that granted the school more than $29 million in funding for the restoration of the building. They started in the summer of 1999. The roof of the main corridor at the school was soon removed, and the old Cy-Fair Brigade gym was taken down. Cy-Fair High School was flooded after a heavy rainfall on April 18, 2016 that left a flood in the greater Houston area due to the April 2016 North American storm complex, sometimes referred to as the "Tax Day Flood" by some. The flood left some damage to Cy-Fair High School, and the carpet had to be replaced in twenty classrooms, as well as the carpet for the school library. The floor for the school's weight room also had to be removed and replaced. Cy-Fair was one of the 57 campuses in the Cypress Fairbanks District that faced damage due to the flood. Unsurprisingly, all of the schools in the district were closed from April 18–22. On Sunday, February 5, 2017, the Cy-Fair High School Brigade, along with many other dance teams from the school district, performed with Lady Gaga at the Super Bowl LI Halftime show that took place at NRG Stadium in Houston, Texas. As part of high school rezoning, a portion of Cy-Fair's attendance zone, as well as portions of Cypress Falls High School and Cypress Woods High School's attendance zones, was to be reassigned to Cypress Ranch High School in 2017. On August 26th, 2017, the school was, once again, flooded, as a result of Hurricane Harvey. Cy-Fair High School, as well as all of the schools in the Cypress Fairbanks District, postponed the first day of school for the school year of 2017-2018 for two weeks before reopening and setting its new first day of the school year on September 11, 2017. Shortly after the hurricane hit, Cy-Fair High School’s rugby team volunteered to clean out the flood-damaged homes within their community, twenty-seven homes being the total amount that they helped to clean out. As a result, they were honored with a plaque for their contributions to the community. Covid-19 Pandemic and 2021 Snow Storm At the start of the Covid-19 pandemic that started COVID-19 lockdowns during the spring of 2020, Cy-Fair High School and the rest of the schools in the Cypress-Fairbanks School District shut down their campuses, cancelling all in person classes for the