TL;DR: SWTOR articles should not assume certain choices were made unless anavoidable.
It makes sense to have one ending be the "canon" one (within the Legends continuity) for games like the Force Unleashed, which has one specified canon ending. And indeed, most Star Wars games with player choices work like this.
So for these games, it makes to do things the way they are already done, to have the "canon" ending in the article, and then having alternate endings or story changes in the behind the scenes section.
However, I disagree with the way the wiki does things for SWTOR. The devs have repeatedly stated that there are no "canon" choices in the game. There is no reason to assume that any choices are the "canon" ones.
For this game, the wiki, has reached the decision to assume that Republic-aligned characters make all light-side choices, and that Imperial-aligned characters make all dark-side choices. Articles are meant to include those choices and their outcomes in the main body, and alternate choices in the behind the scenes section.
I do understand the purpose of this in clearing up continuity. However, there is no reason to assume that those are the personalities of the characters. Also, especially for the tech classes, making all light-side or all dark-side choices doesn't even necessarily result in a consistent character. Furthermore, while this format is followed for major articles, it is far from being applied to all SWTOR articles.
Most importantly, in my opinion, Wookieepedia is intended to provide up-to-date, accurate, Star Wars information. Since no choices are meant to be "more canon" than others, by treating them as such, Wookieepedia is providing inaccurate information.
I propose that instead, articles on characters/events/etc. in SWTOR should, in the article body, mostly ignore choices and just focus on the main story beats, as the main story progresses in the same way regardless of choices. Wherever this is not possible as a choice/result of a choice is integral to the story, such as the ending of the Imperial Agent story, then put the warning that says "This section of the article assumes that the player chooses only "dark side" options when available during the course of Star Wars: The Old Republic. Alternate stories are noted in the "Behind the scenes" section. Note: The events in this section may or may not have been confirmed as canon within the Star Wars Legends continuity." This is already used on major SWTOR articles, but it is over the entire thing, rather than as minimal an amount as possible.
In the behind the scenes section, you can denote all possible choices.
P.S. I know I'm new to the wiki, but I would help with changing this, and please don't discount what I am saying simply because I am new.
P.P.S. Unrelated, but for SWTOR protagonists that don't have a proper "nickname" just use their callsign. The Bounty Hunter is still called "Hunter (individual), just call them "Scree".