I appreciate the explanation and that you're working on the bugs with the event as it currently is. I have mixed feelings about it though.
Logically, I understand why this is the outcome you (Frontier Developments) had to choose. You have plans for the Cone Sector and you couldn't allow players to go there, even those who cleverly thought to use the gnosis' range to bypass other permit locked sectors. Trying to weave this into the narrative by itself was well-intentioned, but what went wrong here is that you sent mixed signals as the Dungeon Master of this story.
On one hand, allowing the Gnosis' jump schedule to remain as planned and on the other hand the pilots federation discouraging players from going with the Gnosis. Although that may have been a genuine warning to players to not get invested in this, it instead sparked enthusiasm for being able to go to a place that could not be visited otherwise, while the warning of thargoids attracted players who wanted to take on the new thargoid variant while potentially being stuck there and having to make do with what they could bring on the Gnosis. As a result, a lot of hype and expectations for some kind of big reveal or find in the Cone Sector built up during the lead-up to this jump, and many players dedicated their time to preparing for such an event.
With so many players involved, the event got a life of its own so the disappointment when the Gnosis ended up not really going anywhere was inevitable.
There are several ways that could have been handled better and avoid disappointing many players. A little out of character communication ("sorry guys, we have plans for the area and we can't actually let your megaship go there so expect something to go wrong") before the hype got too far out of hand or creating an in-universe reason for the Gnosis to not be allowed to jump there. Such as the Federation deciding the Gnosis can't be allowed to stir the hornet's nest and boarding the ship to steer it back to the Bubble.
I hope in the future you'll be more alert when player expectations for the ingame events you're creating become dangerously unrealistic and improve your responses (in-character and/or out of character if necessary) to avoid disappointment like that.
Now excuse me, my COVAS is warning me about more Thargoid scout attacks on the Gnosis... o7