| Fellow, American Association for the Advancement of Science | James C. Weisshaar |
| Hilldale Undergraduate/Faculty Research Awards, 1993, 1995, 1999, 2001, 2002 (with undergraduates K. Haug , W.-K. Woo, V. Chen, T. Huppert, L. Klein) | James C. Weisshaar |
| Fellow, American Physical Society | James C. Weisshaar |
| Vilas Associate Award, UW-Chemistry, 1997-1998 | James C. Weisshaar |
| Evan P. Helfaer Professor of Chemistry | James C. Weisshaar |
| Upjohn Award for Teaching Excellence in Chemistry | James C. Weisshaar |
| WARF Romnes Faculty Fellowship, University of Wisconsin-Madison | James C. Weisshaar |
| Dreyfus Research Grant for Newly Appointed Faculty in Chemistry | James C. Weisshaar |
| American Chemical Society Nobel Laureate Signature Award | James C. Weisshaar |
| National Science Foundation Predoctoral Fellowship | James C. Weisshaar |