It doesn't really sound like a problem. I mean, every DF player already kills nobles who "like adamantine" or platinum and such. I personally don't, because I think it's funnier and that eventually he'll get killed when the fortress tantrum spiral begins.
I'm honestly not sure about what was said in the last posts. Seems like I've misunderstood something.
I thought a little about milicias, military groups that would be hired to protect important dwarves. Nobles have the Royal guard, Fortress guard would be for elected/named nobles and fortress global order.
Perhaps some guild members, along the more useful in fight, could have a special status as Bodyguard for the GM. As the guild becomes more powerful, it could hire more bodyguard and end up in a strong milicia.
Also, just came to think about another thing : other fortresses are quite similar to yours. With the Caravan Arc, they'd have a production, and due to this the game could track what profession would be dominant there and so how powerful every guild is.
Eventually, the Lolum (wood) Guild in your fortress would only be a part of the whole Lolum Order/Organisation/... This means the Guild in your fortress could use the amounts of wealth of other fortress guilds. And ask for help.
Imagine a guild trying to establish in your fortress, asking for some highly-skilled dwarves in order to boost its productivity.
I'd like to say the last part is only logical deduction. I'm not for or against it.