His current work uses rational economics to develop safe and beneficial intelligent technologies for better collaborative modeling, understanding, innovation, and decision making.

[12] Omohundro started Self-Aware Systems in Palo Alto, California to research the technology and social implications of self-improving artificial intelligence.

Omohundro joined the International Computer Science Institute (ICSI) in Berkeley, California, where he led the development of the open source programming language Sather.

With John David Crawford he showed that the orbits of three-dimensional period doubling systems can form an infinite number of topologically distinct torus knots and described the structure of their stable and unstable manifolds.

[22] From 1986 to 1988, he was an Assistant Professor of Computer science at the University of Illinois at Urbana-Champaign and cofounded the Center for Complex Systems Research with Stephen Wolfram and Norman Packard.