Some things don't make sense. Maybe it's an issue of the game being too ambitious, and not being able to account for all the possible variables. But yea, if you're on the NTR path, and you choose to save Robert, why is Daniel calling you and saying he found Nicole and Alice? Why would he do that? By that point, he knows that you're working with Robert, and he won't try to help you. Also, why would Nicole and Alice choose to leave Robert? Nicole is pregnant with Robert's child, and Alice has seemingly been sleeping with Robert, regularly.
If anything, after saving Robert, I could see Robert giving back Nicole and Alice to the MC as a thank you for saving his life. And then maybe (during a "Meanwhile..." scene), Robert would tell Nicole and Alice to go back to the MC. That would be the only possible explanation why MC would be reunited with his wife and Alice in the NTR path. And of course, there should be obvious tension between MC and Nicole because of everything she went through with Robert. There's no way she'd be all lovey dovey with the MC knowing that she's carrying Robert's child, and that MC chose not to make a deal with Robert earlier (which would have reunited them much earlier).
It seems what happened was the earlier parts of the game had too many choices and variables, and it became too difficult to code and write for each potential path/choice. So, the dev decided to just negate all the previous choices and put us on one path with slight variations (if you're working with Robert, Tommy, or the Government). It's a little disappointing because I did like all the variations the earlier chapters of the game had. But it seems to be pointless now.