Samuel,
There are 4 guy lines that you mention for staking in the wind (fly, inner, and ground sheet if used) as well as 2 more guy lines attached to the sides of the fly (can't see from picture). There are also several more attachment points around the fly for attaching additional guy lines if that became necessary. The tent comes with instructions for staking down in the wind and priority of which stakes to use in which order. Tent is designed to face foot-first into the wind (don't we all wish wind was that consistent in direction above treeline!).
There are attachment points to the inner tent, though they might be difficult to use with the fly on. I don't think that is what you were referring to anyway.
I couldn't see any direct attachment points for guy lines to the poles themselves. The fly has velcro straps to secure to the poles and there is a buckled closure around the poles where they cross. The inner hangs from the poles.
If using the ground sheet and/or a cross-cord (which I ordered) the inner can be installed after the outer. Or the outer can be used by itself with no inner. So you can protect the inner during setup if you desire. To be honest though, the tent is so fast to set up (inner first as that's the easiest) the inner isn't exposed for all that long. The most time consuming step for me was the 20 or so seconds to attach the pole sections together inside the house. I'm sure it took me less than 2 minutes to set up and perhaps even less than one – and that's for a tent I'd never handled before.
As for rain entering through the doorway, that's a legit concern. From directly overhead you should be fairly well protected and if there is wind and you have the tent properly oriented (toe in) to the wind that should help matters. But if there's a head wind, you'll get some rain in through the doorway. The vestibule area will get rained on, so probably best to pull any dry things into the tent before opening up the door. I'll have to give it a closer inspection tonight to see if the doorway overhangs the inner at all and by how much.
Dylan,
My pack fits in the vestibule. Or under my legs if using my short Neo-Air. But I've become so spoiled by the full length pad lately.