Natural selection can preserve variations that improve survival and reproduction. Over many generations, this process can produce organisms with increasingly effective regulation, control, robustness, and adaptation.
From this perspective, engineering-like organization does not require an engineer. Systems that regulate themselves effectively are simply more likely to survive and reproduce than systems that do not.
This objection goes directly to the central design question. If natural selection can produce the kinds of organization that resemble engineering, then resemblance to engineering cannot by itself establish intelligent design.
Natural selection unquestionably provides an important explanation for adaptation. It can preserve and refine useful arrangements, and evolutionary research shows that robustness, modularity, and other organizational features can be favored under appropriate conditions.
The design question therefore cannot rest merely on the existence of adaptation. It asks a further question: whether mutation, selection, inheritance, and other known mechanisms adequately account for the origin of the information, regulatory architecture, coordinated components, and functional systems upon which selection acts.
Showing that selection can refine an advantageous system is important. Whether it completely explains the origin of the system is a separate question that must be investigated case by case.
How much of the engineering-like organization found in living systems can be traced through demonstrated evolutionary mechanisms, and where do important questions about origin remain?