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Colin Pittendrigh coined the similar term 'teleonomy' for apparently goal-directed biological phenomena. For Pittendrigh, the notion of 'adaptation' in biology, however it is defined, necessarily "connote that aura of design, purpose, or end-directedness, which has, since the time of Aristotle, seemed to characterize the living thing" This association with Aristotle, however, is problematic, because it meant that the study of adaptation would inevitably be bound up with teleological explanations. Pittendrigh sought to preserve the aspect of design and purpose in biological systems, while denying that this design can be understood as a causal principle. The confusion, he says, would be removed if we described these systems "by some other term, like 'teleonomic,' in order to emphasize that the recognition and description of end-directedness does not carry a commitment to Aristotelian teleology as an efficient causal principle."

Some philosophers of biology such as James G. Lennox have argued that Darwin was a teleologist, while others like Michael Ghiselin described this claim as a myth promoted by misinterpretations of his discussions, and emphasized the distinction between using teleological metaphors and actually being teleological. Michael Heads, on the other hand, describes a change in Darwin's thinking about evolution that can be traced from the first volume of On the Origin of Species to later volumes. For Heads, Darwin was originally a far more teleological thinker, but over time, "learned to avoid teleology." Heads cites a letter Darwin wrote in 1872, in which he downplayed the role of natural selection as a causal force on its own in explaining biological adaptation, and instead gave more weight to "laws of growth," that operate [without the aid of natural selection].

Francisco Ayala specified three separate situations in which teleological explanations are appropriate. First, if the agent consciously anticipates the goal of their own action; for example the behavior of picking up a pen can be explained by reference to the agent's desire to write. Ayala extends this type of teleological explanation to non-human animals by noting that A deer running away from a mountain lion. . . has at least the appearance of purposeful behavior." Second, teleological explanations are useful for systems that have a mechanism for self-regulation despite fluctuations in environment; for example, the self-regulation of body temperature in animals.  Finally, they are appropriate "in reference to structures anatomically and physiologically designed to perform a certain function. "

Ayala, relying on work done by philosopher Ernest Nagel, also rejects the idea that teleological arguments are inadmissible because they cannot be causal. For Nagel, teleological arguments must be consistent because they can always be reformulated as non-teleological arguments. The difference between the two is, for Ayala, merely one of emphasis. Nagel writes that while teleological arguments focus on "the consequences for a given system of a constituent part or process," the equivalent non-teleological arguments focus on ""some of the conditions ... under which the system persists in its characteristic organization and activities"