So, the Kind Sir Redwood Elf helped me out by making a few dungeon maps. One of them needed some extra rooms to house some story content, so rather than bothering him I thought I'd give it a shot on my own. Suprisingly, everything went pretty smoothly...until I tested it in game.

For some reason most of the parts that I made the rooms out of are appearing in other places. I check in the CK, and everything is where its supposed to be, but in game rooms are intersecting one another in really awkward ways and making it generally impossible to navigate the dungeon.

NOTE: by different places, I don't mean the seams are a bit off, I mean they are on completely different parts of the map. Anyone know what might cause this?

Hmm, I had something similar sounding. 6 square wooden planks making a cube which displayed fine in the CK, but in game they were way off, and looked more like a floating + sign. It may not be the same thing but you never know, what are the X, Y, Z co-ordinates in the CK for each piece? With mine they were way too high, something like 600000, I don't know how it got that high, I never made it that way, just placed them expecting no problems. Resetting each one to 0 fixed it, there is a limit to how high those numbers can go and now I always make sure the first piece in each cell I place is 0, 0, 0.

Might not be the same thing though, but it sounds similar.

No, it wasn't that. Anyway, I managed to fix it when I noticed that it was a NorChamber, so I deleted the only chamber piece (which wasn't rendering in CK for some reason) and it works fine. Weird though...