Resolution: Works As Intended
Affects Version/s: Minecraft 14w26c, Minecraft 1.7.10
Fix Version/s: None
In this seed: 1446994643 I found three structures with some kind of overlapping with other generated stuff.
First Screenshot (320,74,-2): A Plains Village with a Ravin and a Lake in one place.
Second Screenhot (728,80,292): A Desert Pyramid under a Desert Village
Thirt Screenhot (-193,87,403): A Desert Well with a Cactus floating over the water. (This Overlap only appears in 1.7.10, in the 14w26c no Well is generated at this location)