Let's look at this problem a slightly different way.
You can't choose which URL will be listed. You can only ask that a site be re-reviewed, and you can give reasons for that.
When you ask, the editor will go to the OLD URL. If it still works, and if nothing at THAT site says "we prefer to use some NEW URL....--- then the editor will NOT change.
On the other hand, if the editor goes to a site, and sees evidence that that URL is not the main URL, then they should change, regardless of the fact that no update URL request was made.
So: make sure the WEBSITE clearly indicates ONE primary URL, and then ask for it to be re-reviewed, mentioning that (you think) the URL should be something different.
Remember that the "add URL" and "update URL" features are NOT FOR WEBMASTERS. Webmasters are not allowed to use them. Only people are allowed to use them! If you don't tell us you're the webmaster, we won't ask, we'll just assume you're human because you know how to use the keyboard.
Remember, AS A WEBMASTER you have absolutely NO rights of access. It is as a person, just like any other person, that you are a party to the social contract. We know perfectly well that the chances are 300 million to 1 AGAINST the submitter and webmaster being the same. (OK, maybe self-interest affects the odds a little.) But I trust you get the point. We won't do ANYTHING to a listing because someone asks for it; we do it only because after reviewing the site it seems the right thing to do.