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| Time | Date | Name | Team | Meet |
|---|---|---|---|---|
| 46.28 | March 21, 2024 | Jesse Ssengonzi | University of Chicago | NCAA Division III Championship |
| 46.46 | Nov. 19, 2021 | David Fitch | Kenyon College | Kenyon Total Performance Invitational |
| 46.92 | March 21, 2019 | David Fitch | Kenyon College | NCAA Division III Championships |
| 46.97 | March 19, 2015 | Reed Dalton | Washington University (Missouri) | NCAA Division III Championships |
| 47.34 | March 21, 2013 | Wyatt Ubellacker | Massachusetts Institute of Technology | NCAA Division III Championships |
| 47.58 | March 18, 2010 | John Dillon | Middlebury College | NCAA Division III Championships |
| 47.86 | March 19, 2009 | Matt Harris | Kenyon College | NCAA Division III Championships |
| 47.94 | March 21, 2008 | Matt Harris | Kenyon College | NCAA Division III Mens Championship |
| 48.15 | March 17, 2006 | Justin Hake | Emory University | NCAA Division III Mens Championships |
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