I grew up in Washington State (Western US) where baiting was not only unpopular it is illegal. Depending on the animal and the area baiting may or may not be illegal to some extent Example; Waterfowl Hunting and Baiting, U.S. Fish and Wildlife Service
I currently live in a part of the US where it is not unpopular and mostly legal. The following is my perception on why both cases are the right choice, with deer as the example.
In the Western US there are large tracks of land mostly un-populated by people. The majority of the deer population are in these underpopulated areas. Hunting is a sport, we go out and hunt (search for, kill and consume wild animals in their native habitat). Baiting, is considered in the same category as: Shooting Fish in a barrel, using enhancement drugs in sports, cheating on exams, non-consensual intercourse. Sure it brings results but if your going to go to that point there are many ways to get the same results without making immoral choices, like go to the store and buy beef.
In the Eastern US there are very few tracks of un-populated lands. Deer live in the suburbs, in some cases they are considered to problematic. You can't go into the woods and walk for miles looking for deer, without finding way more houses then you do deer, even with an average of 30 deer to the square mile. In many cases significant planning needs to go into finding a shooting (fire arms) position that is safe. Hunting deer is closer to chore that happens to fill the freezer than a sport. Many hunters will hunt with arrows out of necessity as the deer are in area where there is no safe fire arm discharge area.
In summary it depends; are you and the animal being baited interacting as a challenge in the animals native environment (forest), or if you are interacting in the peoples environment (suburb). Are you hunting a majestic beast, or exterminating a tasty vermin?
In the end: ultimately baiting increase the harvesting rates for the animal. If the population being harvested (hunted) is higher than the ecosystem will tolerate, than baiting is ultimately a good thing. If the population is low or at risk and there is high volume of hunters baiting is a bad thing. Humans are part of the ecosystem, they have powers of reason and can understand cause and effect. If humans want to maintain a stable or alter the ecosystem they make choices that influence the population, baiting is one of many tools that can be used to impact the population in an area.