| August 2001 | Thunderstorm Wind | Hillsboro | $1,000,000 | A Davis system measured a 110 mph wind gust with sustained winds at 100 mph. 2,400 trees were blown down along with 23 miles of powerline. 27 National Guard members were called in to help the community. Road and business signs were folded over by the wind and some windows in town were blown in. 25 percent of the 200 homes in town were damaged. The courthouse dome was damaged and the local government communications tower was blown over. A 12x40 foot warehouse was blown down with its contents scattered. Minor damage occurred to 2 motorhomes in the city's westside RV park and campground. Several semi trucks were flipped over along Interstate 29 on the west edge of town. |
| September 2019 | Flash Flood | Hillsboro | $250,000 | Streets, low spots, rivers, and basements were flooded by 4 to 9 inches of rain over a short duration of time. Cars that got stuck in the flood waters were abandoned where they stalled. Farm fields and access roads were also flooded. |
| July 2007 | Hail | Hillsboro | $200,000 | The Traill County Sheriff reported driving rain and large hail just west of Interstate 29 near Hillsboro. Strong wind gusts also uprooted a few trees and blew a door off a grain elevator. Crop damage also occurred across portions of Norway, Bloomfield, and Hillsboro Townships. |
| August 2001 | Thunderstorm Wind | Hillsboro | $150,000 | 4 grain bins were destroyed, spilling 200,000 bushels of barley over U.S. Highway 81. The highway was closed to traffic until the grain could be moved. |
| June 2003 | Thunderstorm Wind | Hillsboro | $100,000 | Two tractor-trailer rigs were blown Interstate 29 between mile posts 93 and 94. |
| April 2022 | Flash Flood | Hillsboro | $50,000 | Streets flooded to more than a foot deep at several intersections. |
| July 2008 | Thunderstorm Wind | Hillsboro | $50,000 | Strong winds blew apart baseball dugouts and damaged fencing at the baseball complex. |
| August 2001 | Thunderstorm Wind | Hillsboro | $20,000 | 7 railroad cars were tipped over at the sugarbeet plant. |
| August 2001 | Thunderstorm Wind | Hillsboro | $20,000 | A crop dusting operation was damaged by the strong wind. One airplane sustained major damage. |
| August 2001 | Thunderstorm Wind | Hillsboro | $15,000 | A church, built in the 1880s, lost its steeple to the strong wind. |
| June 1999 | Thunderstorm Wind | Hillsboro | $10,000 | Trees were blown down in Hillsboro and a section of fence was snapped in two. A storage shed at the local golf course was also blown over. |
| July 1999 | Thunderstorm Wind | Hillsboro | $5,000 | Trees and power lines were downed, knocking out power to 2882 customers. |
| June 2024 | Thunderstorm Wind | Hillsboro | - | Media Broadcaster reports broken branches of 5 inch diameter in Hillsboro. |
| April 2023 | Flood | Hillsboro | - | Hillsboro, on the Goose River. Crested at 13.65 ft, on April 20th at 23:30. |
| September 2020 | Thunderstorm Wind | Hillsboro | - | Multiple 4 to 6 inch diameter branches were blown down in Hillsboro. |
| June 2020 | Thunderstorm Wind | Hillsboro | - | The awning was twisted at a gas station. |
| June 2020 | Thunderstorm Wind | Hillsboro | - | Tree branches were blown down around town, with some falling and breaking power lines. |
| June 2018 | Thunderstorm Wind | Hillsboro | - | Several trees were blown down. |
| July 2016 | Hail | Hillsboro | - | The large hail damaged the windshields on vehicles. |
| July 2014 | Thunderstorm Wind | Hillsboro | - | Several trees were blown down with scattered power outages around town. |
| June 2013 | Thunderstorm Wind | Hillsboro | - | Numerous three to six inch diameter tree branches were blown down. Power outages were also reported in the Hillsboro area. |
| August 2011 | Hail | Hillsboro | - | Pea to dime sized hail fell southwest of Hillsboro. |
| July 2011 | Thunderstorm Wind | Hillsboro | - | Several 10 inch diameter trees were split by strong winds. |
| July 2008 | Thunderstorm Wind | Hillsboro | - | Several large limbs were blown down in a shelterbelt. |
| July 2008 | Heavy Rain | Hillsboro | - | Wind driven rains produced localized street flooding and basement seepage in homes. |
| June 2005 | Tornado (F0) | Hillsboro | - | A tornado briefly touched down in a field. |
| June 2005 | Flash Flood | Hillsboro | - | Street flooding occurred all over Hillsboro. Water pooled in yards and seeped into basements. |
| August 2005 | Hail | Hillsboro | - | The hail fell along the Traill/Cass county line near the Red River, before crossing into Norman county. |
| July 2005 | Lightning | Hillsboro | - | Lightning struck a tree on the grounds of the Plummer House. Pieces of the tree were found up to a block away. |
| July 2002 | Flash Flood | Hillsboro | - | Rushing water washed out a culvert and a portion of railroad tracks north of Hillsboro. An alert farmer called 911 and stopped the next Amtrak train leaving Grand Forks and going southbound. The rail line was closed for 24 hours while the spot was repaired. |
| July 2002 | Flash Flood | Hillsboro | - | Street and basement flooding was reported along with some sewer backup. Some cars were stranded on city streets. Portions of 20 county roads were closed due to flooding. |
| May 2001 | Flash Flood | Hillsboro | - | 2 to 2.50 inches of rain fell quickly, flooding Loyal Avenue in Hillsboro. Fire trucks were called out to pump out the excess water. Nearby, two culverts and portions of a road were washed out, leaving one farm family without access to their farm. |
| July 1999 | Thunderstorm Wind | Hillsboro | - | An 87 knot wind was reported from a personal weather station. A metal building was destroyed and trees and power lines were downed. |
| April 2022 | Hail | Hillsboro | - | no account filed |
| July 2017 | Hail | Hillsboro | - | no account filed |
| June 2014 | Hail | Hillsboro | - | no account filed |
| June 2014 | Hail | Hillsboro | - | no account filed |
| June 2006 | Hail | Hillsboro | - | no account filed |
| June 2006 | Thunderstorm Wind | Hillsboro | - | no account filed |
| June 2005 | Hail | Hillsboro | - | no account filed |
| September 2005 | Hail | Hillsboro | - | no account filed |
| June 2004 | Hail | Hillsboro | - | no account filed |
| August 2002 | Hail | Hillsboro | - | no account filed |
| August 2002 | Thunderstorm Wind | Hillsboro | - | no account filed |
| September 2001 | Hail | Hillsboro | - | no account filed |
| August 2001 | Hail | Hillsboro | - | no account filed |
| August 2001 | Hail | Hillsboro | - | no account filed |
| August 2000 | Hail | Hillsboro | - | no account filed |
| June 1998 | Funnel Cloud | Hillsboro | - | no account filed |