I recently did a beer with hatch green chilies, which are very mild. I can offer you these thoughts:
1. If you toss the chilies in the boil you'll get less flavor/aroma than if you add them in secondary. However, they will be sanitized by the boil.
2. It doesn't take a lot of chilies to add flavor/heat/aroma. It would be better to add less to start and then add more as desired.
3. As with all things beer, time changes flavor. I found when I first added the chilies (I added both fresh and roasted peppers) within a couple of days there was heat but not a lot of flavor. A couple more days in there was mild flavor and mild heat. Six days in there was little heat (no surprise since they are mild peppers) and a bold, complex chili flavor. So you may want to consider what kind of chili flavor you want to determine your addition schedule. You may even want to add two additions to balance chili flavor and chili heat.