Boxma continued at Utrecht as faculty from 1974 to 1985, and was IBM Research postdoctoral fellow in 1978–79, before joining the faculty of Centrum Wiskunde & Informatica in Amsterdam. There he chaired the performance analysis group until 1998. He was full professor at University of Tilburg from 1987 to 1988. and since 1998 he is as full professor holding the chair of Stochastic Operations Research in the Department of Mathematics and Computer Science at Technische Universiteit Eindhoven, becoming vice dean of the department in 2009.