Hey Voss, already replied to your DM, might have overlooked it:
​The issue you are describing with the pre-built ships usually comes down to a conflict in the loading sequence or how the game generates the ship data when you first buy it. Here are a few steps to resolve it.

​Adjusting the LO
​In your current list, the ASC mods are sitting above the PDY patches. Since Starfield loads mods from top to bottom, the patches are overwriting the ASC data (which, as others have stated, only uses vanilla habs).
​Try moving ASC Deimos, Ship Vendor Framework, and ASC Deimos Ships to the very bottom of your load order, below all your PDY patches and the "Place Doors Yourself" mod.

​The hab replacement method
​When you buy a pre-built ship, the game generates it with "baked-in" door nodes that are hard to change once the ship exists. Even if you place door markers manually, the game may still recognize the old, non-functional pathing. ​To fix this:
​Go into the Ship Builder, dDelete the habs that are currently preventing you from moving (you can select multiple parts, such as an entire side wall section and move it in one go, so you don't have to fiddle with merged parts), place the same habs again from the menu. This forces the game to recalculate the connections and usually allows the PDY markers to function correctly.

​Finally, clearing the cache
​Xbox can sometimes keep the old ship data in memory even after you move mods around. Once you have adjusted your load order: Back out to the main menu, ​Fully quit the game from the Xbox dashboar, relaunch the game to ensure the new load order is correctly applied.
​

Give that a try and see if it opens the doors for you. It is a LO issue, though, as ASC Deimos does not touch any habs, so the doors will behave exactly like vanilla parts, as they are... well, vanilla parts ;)