Yes.
It has been confirmed by Todd the man himself. Question is, what's their definition of unique. That is all.
It would be logical to assume that the arcitecture of dungeons will be similar eg all dwemer ruins will have the same arcitecture because one culture won't only design things one way only once, they repeat their designs.
The Falmer ruins (if there are any) will all in architecture be similar to each other but vastly different from Dwemer. The same rules I think will apply to Ayleid, ancient Nord ruins etc.
I think it will be that the traps and puzzles in the dungeons will be unique from the others, with only slight variations in the actual design of the dungeon
This is simply my opinion so I could be right, I could be wrong