Nice selection of shelters there.
I often just roll or stuff my shelters and put them into my pack. I have several Tarptents, a tarp, and a double wall BA Copper Spur UL1. If there's an attached inner, and the tent is rolled, the inner is mostly protected from anything except a river dunking. A went inner tent is just a minor annoyance, as that sometimes happens with severe condensation in some weather conditions anyway. I do generally put the inner of the Copper Spur in a stuff sack if it's convenient.
For the secondary guylines on the Notch, tie a bowline to form a loop in the tent end. It's most convenient to make it large enough that the bundled line will fit through it in case you want to attach it but leave it bundled. Then, feed that loop through the attachment. Next, feed the stake end of the line through the loop at the other end of the line, pulling the whole thing tight. This is called a larkshead or lanyard knot. It's easily detached by loosening and then pulling the line back out of the loop. You could also use small Niteize S-biners or carabiners to attach the loop to the tent, but that adds weight.