However, critics argue that welfare is an inadequate response to systemic suffering. By making exploitation more palatable, welfare reforms may inadvertently prolong and legitimize the very systems of confinement and killing that ethicists find objectionable. As philosopher Bernard Rollin noted, welfare often becomes the "fig leaf" that covers the inherent cruelty of industrial animal agriculture. In stark contrast, the animal rights position is deontological and abolitionist. Rooted in the philosophy of thinkers like Tom Regan and Gary Francione, it argues that certain non-human animals possess inherent value—what Regan called "inherent worth"—simply because they are "subjects-of-a-life." These beings have beliefs, desires, memory, a sense of the future, and a psychological identity. Because they have this inner life, they possess basic moral rights, most fundamentally the right not to be treated as a resource or a commodity.

The rights position draws a powerful moral line. It argues that if we would not inflict a certain level of suffering on a human infant or a mentally incapacitated adult (who shares similar cognitive capacities to many animals), we cannot justify inflicting that suffering on a pig or a chimpanzee simply because they are a different species—an arbitrary distinction Regan called "speciesism." The most famous articulation of this view comes from Peter Singer, who, though a preference utilitarian rather than a deontologist, argued for equal consideration of interests: "The capacity for suffering and enjoyment is a prerequisite for having interests at all... the principle of equality requires that [an animal's] suffering be counted equally with the like suffering—in so far as rough comparisons can be made—of any other being." Despite their differences, the two movements are not entirely at odds. In practice, they share a common enemy: gratuitous cruelty. A welfare advocate and a rights advocate will both condemn the brutal beating of a dog or the neglect of a horse. Furthermore, welfare reforms can serve as incremental steps toward a rights-based future by raising public consciousness about animal sentience.

Proponents of welfare, such as many farmers, biomedical researchers, and mainstream humane societies, work within a system of regulated exploitation. They advocate for larger cages for laying hens, humane slaughter methods, environmental enrichment for zoo animals, and pain relief for laboratory subjects. The goal is not to empty the factory farm or close the research lab, but to make them kinder. The welfare approach has yielded significant practical victories, including the banning of gestation crates for pigs in several jurisdictions, the European Union’s ban on cosmetic animal testing, and the rise of certification labels like "Certified Humane."