Things are getting very scary, very quickly.
"Jora, contact Vladivarus on Miros Prime and repeat the following code to him: epsilon-omega-kingfisher-97."
The Astropath goes into trance.
"Mikresu, look at our conversation logs."
"Let me see, sire. ............. By the Omnissiah! 01001110 01000101 01010110 01000101 01010010 00100000 01000111 01001111 01001110 01001110 01000001 00100000 01010010 01010101 01001110 00100000 01000001 01010010 01001111 01010101 01001110 01000100 00100000 01000001 01001110 01000100 00100000 01000100 01000101 01010011 01000101 01010010 01010100 00100000 01011001 01001111 01010101*"
"Indeed. Now, pull yourself offgrid-"
"Ew."
", then, set up our backup scanning array on the aircraft, and pull the aircraft offgrid too. Take some of your raw materials, too. Then, fly up to Weeping Cherry's site. Radio comms only, radio comms with me through Vernam sheets only. Oh, and come up with a specification for the fabricator. We can't pull it from the Network."
"...Right. On my way, sire."
Now, how do I phrase things carefully...
A person wielding such a scanner will arrive to your location by air within 90 minutes. You may use ocean's water and floor as fabrication matter, or otherwise request the person to jettison you more convenient materials.
You have picked an excellent question to ask. Imperium finds itself asking it over and over themselves.
The engines of an Imperial ship momentarily destabilize the fabric of reality and push the ship through it into Warp. In Warp, time and space are unshackled off Materium's limitation, and are wholly disorderly, and impossible to navigate to a mere human - or, indeed, a machine. A specially trained abhuman psyker, a Navigator, aided by the light of the Emperor's soul projected by the Astronomican on Terra, may, with some luck, arrive at the destination, where the engine can push it back into Materium. Meanwhile, the most important part of the ship, the Gellar field generator, stabilizes the internal reality and thus protects the ship from the preils of the Warp.
Further technical details of the process are largely unknown to me. The jump drive and the Gellar field are products of the Dark Age of Technology, and the Mechanicum jealously guards what they understand of them - which must be quite limited, as they cannot build new jump drives and Gellar fields for especially large ships, which are considered irreplaceable. The Noble Houses of the Navigators keep the techniques of Warp navigation similarly secret, and I similarly doubt the depth of their understanding, as well as the ability of anyone else to replicate it. The Astronomican is, of course, unique, and it's operation is kept wholly secret.
I cannot, of course, speak for the ships of other civilizations, but I have heard of Necron vessels smoothly accelerating beyond light speed in Materium, as if the ways reality changes at extreme speeds are a mere illusion one could ignore at a whim.
My further question to you would be: Why did you break the Witchbane Shackles? If my understanding of you is correct, you do not rely at all on what these things were trying to restrict.
*Traditional prayer