This is how we operate: Townships come before the guild. If you have to fight a guild member for the sake of town politics, you may (just remain honorable about it). However, when you're doing something as part of the guild we're all on the same team. We also give the option to sit out on a job if you're not comfortable helping an enemy or hindering an ally, or exclude you at the client's discretion.
It's a little weird, but I want to keep the guild open to the whole server. The Academy is so neutral we loop around to Good for Everyone. Of course, in keeping with our openness, you may stay or leave as you choose.