1. Yeah, I'm thinking that this is, at best, an EA issue. At worst, it's something you waffle on so badly later on that I'm not sure what you're trying to say, attempting to accommodate a lot of potential player choices, including playing as one of the characters that's supposed to react to what is going on, and doesn't. The in the middle is "if you're going to be the leader of this group of misfits, you'd best be able to handle this on your own". My biggest issue with this encounter is that I've only triggered it once, in 5 runs through that part, and I had to choose to do it. Either that, or I got really lucky on perception checks... I have yet to have a knife to my throat if I investigate what he's pointing at. I did get it when I chose to just tell him to handle it himself. The other problem I see is if I'm playing as Shadowheart, for example. Will I even have anyone else with me when I meet him, if I go straight there? There are a lot of things we don't know about how this is going to play out on release, it doesn't make a lot of sense to try to condemn it, because maybe the scripts and flags that are supposed to be set are disabled, and perhaps there are reasons for that that we don't know.
2. "It's impossible, but they just don't want to do it"? First you say it's impossible for them to account for every possible choice, and then close out claiming they just don't want to. This is the waffling I referred to above. Either it's possible, and they just don't want to, or it's impossible, so they can't. It can't be both. So if you think it's just that they don't want to, support that.
3. Has no effect on the rest of the game? If you kill the dreamer, or allow Sebil to before the Red Prince talks to him, it breaks his storyline completely. This does affect the rest of the game, unless you choose to leave him behind. If you've managed to do both, and Sebil talks to the lich outside Fort Joy first, you break another storyline. This affects the game, especially if you're planning to use both Sebil and the Red Prince. You can miss a lot of stuff that way.