First, evolution, through natural selection and genetic variation, is indeed capable of innovation. Complex structures and functions can arise incrementally over time. Features that provide a survival or reproductive advantage are more likely to be passed on to subsequent generations, gradually leading to complex adaptations.
The analogy of DNA needing to be like a program, CDROM, reader, and printer all in one cell is an oversimplification that misunderstands molecular biology. DNA replication, transcription, and translation are complex processes facilitated by a variety of proteins and enzymes, which themselves evolved.
Regarding Prof. Michael Behe's arguments in "Darwin's Black Box," while thought-provoking, they have been widely critiqued and refuted in the scientific community. Behe's concept of "irreducible complexity" has been shown not to preclude evolutionary origins, as numerous studies have demonstrated how complex biochemical systems can evolve from simpler precursors through natural processes.
Lastly, it's critical to approach scientific topics with an understanding based on evidence and consensus among experts. While there are always unanswered questions in science, the theory of evolution remains one of the most robust and universally accepted scientific theories, based on overwhelming evidence across different fields including genetics, paleontology, and molecular biology.