When I took over The Castle I was kind of frustrated with the giant holes in the walls on two ends of it. I quickly had problems trying to fit in regular walls, then I found a solution that might be of use to the rest of you. The problem with walls is that they don't go through things, but the floors do. The floor foundation under the wood section can be raised, lowered, and it goes through all kinds of objects that can't be moved. It just fits in really nicely as a wall because of its texture, and it doesn't get blocked by objects. Same thing with bridges.
If you have holes you need to fill, like the stonework near the river in Sanctuary, floor foundation works really well to patch things in since it doesn't get stuck.