That is possible, but many guilds are simply not going to bother, and as with any mmo, when you fail to hook players early on or you fuck up the introduction of content, it tends to get pushed to the side and ignored by many. The article is spot on about the rewards to me, it's a ton of work for pitiful rewards. And as the article again points out and many others have stated on the main boards, why bother when you spend tons of time and end up not getting anything for it? The personal rewards themselves are pretty meh it doesn't really give me any incentive to even bother. I can get my personal goal for conquest, but nothing about it makes me want to do it as my time can earn me far more credits and mats doing other things. Also one of the main rewards is as noted again in the article pretty pointless to earn multiple times because of the node gathering restrictions.
The article writer and others feel the same, and what they are doing? Ignoring conquests, this isn't something that might happen, it's already happening. The whole system is incredibly flawed, as with any MMO system you need to have proper incentive for peoples time or the content gets ignored and abandoned when it's not worth the time. SWTOR is full of content that people aren't running or bothering with anymore because of this. Conquests were a great idea as they get people doing old content, that's a great idea in concept, but it's a big time sink, and you need to properly reward the players.
The rewards dont have to be made zomg awesome, but you need to give everyone a fair shake or goals to bother with. Over time big guilds are likely going to not give a crap about conquests once their guild ship is all tricked out, but that is going to take time, and by then will anyone care anymore? As I said, in MMO's players tend to be unforgiving and once they get a bad taste in an experience, they simply ignore it despite attempts by devs to get people to care down the line.