It seems to me that the biggest problem is not only sucess (measured audience etc) for fan stories but also (more important) legitimacy in the Uru universe/canon. So that they are not seen as mere intrusions, hacks, or 'what if'/parallel stories..
And this legitimacy can happen *only*, let me repeat that:
only, heck let me even spell it: o.n.l.y, with Cyan's help. And that means: inclusion in the official storyline and content. It's that simple, unfortunate as it is. Anything else that we do will only ever be *partly* legitimate and some people will look at this as a side thing. Much like for fan Ages.
Of course there is the concern of quality of production, the space it occupies in the game/forums (number of people/guild involved, update frequency) etc, but regardless of what we do what we produce will always be treated differently by the general Uru community unless there is actual Cyan involvement. Yes that is sad, for everybody (us, Cyan, and the community); but that's how it is. Of course even with Cyan involvement it will still be treated differently, but at least people would stop throwing stones at us, so I guess that counts as an improvement.

What kind of Cyan involvement are we talking about? Not much actually. A pretty small DRC story arc, essentially public announcement/acknowledgement of the DRC that things are happening, IC DRC posts on the DRC forum quoting precise people and events etc.. And obviously some ingame content to give it more weight (KI/Imagers messages if that fit the stories). Again the Sharper journal is just the best example of how this can help. Of course the actual shape and frequency of those updates depend on the story and how often (or not) it is updated.
Although this not a lot of production work for Cyan this is still difficult if only because fan stories are not always planned in advance and organised, and Cyan would need to follow that closely.. And then obviously there's the fundamental decision for them to say that they are officially, and actively, supporting fan stories.
But people who are really motivated by that should not be intimidated, they should try to organise themselves, show what they are able of, and eventually contact RAWA with a formal proposal.. It is always the best way to get things rolling.