Pros
Whole Foods has developed around a framework it calls the Declaration of Interdependence which seeks to account for all of the stakeholders upon which the company is dependent for success. Customers, shareholders, team members, the community, and producers are taken into account in all aspects of decision making to insure an well-rounded base of support from which everybody can succeed with each other. On a more obvious level, WFM has the most competitive benefits/compensation package in the industry, including an amazing 20% discount off retail of everything in the company, good at any Whole Foods or Wild Oats location. Besides being the basis for the widespread popularization of organics and natural foods in America, Whole Foods is now significantly turning its focus to sustainability and natural capital initiatives which seek to create one of the most eco-efficient and healthful companies in the country. Team that up with amazing opportunities for career advancement and participation in social programs such as Whole Planet, in affiliation with Nobel Peace Prize winner Muhummad Yunus, and it almost seems as though WFM is in the world-changing business more than the food retail business. For the progressively-minded employee, Whole Foods doesn't even have any interest in testing for drugs, and requires only that you not be obviously under the influence while on the clock.
Cons
There truly aren't many downsides of working at Whole Foods for the average confident, happy person. Depending on your job, you are very likely to be standing on your feet 7-8 hours a day, happily awaiting your fairly short 30 minute lunch break. Though you're likely to receive the same, droll comments from a fairly common type of customer day-in and day-out, opportunity for lateral movement through a variety of different positions at the store level can prevent job-crippling boredom. If you are incapable of detaching from the misplaced anger of customers who carry try to offload their emotional baggage on unsuspecting employees whenever they can, you'll soon find yourself lashing out; just as with any customer service job. Perhaps the only other downside of the job, which is also commonly lauded as an asset to the operations of WFM, is the decentralization of segments of the company, regions, and stores that come sometimes lead to noticeable redundancies and inefficiencies, but which ultimately allows the sort of freedom where you never quite become a "cog in a machine wheel."