I would think the game should have one waypoint active, even if you didn't use them before (I think discovering one should be enough... I'll test that). It is definitely a bug if it doesn't.
EDIT: Even if you don't discover or use any waypoints before getting to the homestead, the Cyseal North Gate will (normally) be listed and usable.
In the new game I started to check that Zixzax skipped the welcome speech, though, so I may have to double check...
EDIT2: Repeated test after renaming the My Documents D:OS folder (so noting could be carried over from existing saves) and there was no problem with the dialog or using the waypoint to leave the homestead; the north gate waypoint is listed regardless.
Does Zixzax go through the whole welcome speech each time you talk to him?
In the observatory he should start off with "You're still here, are you?". Whether you talk to him or not, clicking on the waypoint for the first time should start another conversation where he begins with "Another quick word before you leave, Unknown Ones!", and after going through that the waypoint list shows up with any waypoints that you have found.
Did you go through all the conversation options with Zixzax?
What happens if you fire your companions and then try the waypoint? If the waypoint list comes up you may get an error selecting a destination that you can not go to the homestead while in dialogue, until you go to the hall of heroes and re-hire the companions (east side of the main room, between a couple of the statues).
Last edited by Raze; 31/01/14 01:43 AM.