OP has a point, and it is not the first time this has been an issue.
Let me be clear: I think this event and others are organized by passionate people at FDev who want to do something fun, and engage the community. It just often falls flat or misses the mark.
I have been thinking of parallels between the Gnosis event and the Dangerous Games. In the latter, many groups prepared themselves in advance, spending several weeks fitting and acquiring ships, expecting the regular CGs. Instead, FDev wanted to do something special, and ended up with smuggling rares, NPC piracy, and a puzzle and salvage CG where especially the first two were not particularly fun to do, and many of the involved groups still have a bitter taste about, and where none of the initial preparation proved useful.
In the Gnosis event, many CMDRs expected an exploration event, organized by the community, that was leveraged by FDev and essentially taken over, with their preparation useless when the exploration event turned into an anti-Xeno fight...
FDev means well. They go out of their way to produce something for the community, no doubt expecting it to be received well. Then the community sees it and goes.... "what were you thinking?".
The disconnect is on many levels. Lore is completely adrift with fluff pieces, or setups that don't go anywhere (Ainsling wedding, Alliance president suddenly active), or rub people the wrong way (the entire Riri McAllister episode made the Alliance look like idiots, not quite the Alliance content Alliance pilots expected). It is disconnected from the player-created galaxy, as you can see from the data sheets in my sig.
I really wish FDev would interact and coordinate more, especially when you're about to hijack a community organized event without involving the group who organized it. I don't think a Council is a good idea, but communicate and interact with relevant parties, where appropriate. Coordinate and talk through what you're thinking with the group or groups involved. When you're thinking of BGS changes, go talk to some established BGS groups. When you're thinking of balancing engineers, get PvP groups involved. Reach out to people who are desperate to talk with you, and don't feel afraid to share your thinking. We're a pretty mature player base. A simple check in early on "this is what we're thinking" could avoid an enormous amount of trouble.