thanks so much for playing <3! can I ask a little more on the issues you were having? I want to make the game more understandable (and difficulty with removal was something i was worried about)
(spoilers below)
In order to remove someone, you need to
1. select the (Eliminate) dialogue option that reads something like "Come over to the window".
2. once they're at the window, you need to talk to them again, and confirm the elimination
(I stole this "ux" directly from the boone retribution mission in fallout new vegas so its is a bit dated hehe)
Did you by chance figure out step 1, but get stuck on step 2? There's no real prompt to talk to them, or that the dialogue options change when they're at the window, so I figure that can be a sticking point.