Pros
Somewhat easy to pick up short term work, and depending on the location co-workers can be cool. The free meals are also pretty good, and there is a significant employee discount usually.
Cons
Extremely inconsistent experience between stores.
One store I worked at had a really chill manager, while other ones would have management that made the experience absolutely miserable.
I had one store that "unofficially" hired me for 18 hours one week and then refused to pay me for those hours, so I guess make absolute sure that all of your hours are recorded in their system.
Because portions aren't standardized very well, a significant amount of customers will be angry at you if you don't give enough food, or if you give too much food your manager will yell at you. The fact that the food is made in front of the customer leads to significantly more negative customer interactions.
If you do work at a Chipotle, make absolute sure it is one that isn't very busy, as it can be the difference between a relatively chill job and a stressful nightmare.