Two options for separating the vegetarian peppers from the meat peppers...
If using a 9"13" nonstick pan, you can line half the pan with foil and fold it up to contain the meat peppers. Doing this will contain any juices that might ooze out. This how I set them up and it works great!
Of course, you could separate them completely by using two 8x8 nonstick pans.