Lakes generate within other lakes and oceans...and water bodies in general. I have seen this in much older version as well but it was always been a rare bug...until now at least.
On the screenshots:
2013-07-07_23.32.48 the biome is FROZEN RIVER.
~23.33.03 is also FROZEN RIVER
~23.33.55 is a lake in a Taiga
I have also seen some in the Ocean biome. Sometimes it is in the form of a cube or parallelepiped оr a cube underwater. Sometimes it is just a "lake" in the ocean.
The new way in which water manages itself clears out the "ocean lakes" but not the air parallelepipeds.
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Unfortunately I deleted the world before I saw this...but I think that coordinates are irrelevant considering that the engine allows for water bodies to be generated IN water bodies.
Is this still a concern in the current Minecraft version? If so, please update the affected versions in order to best aid Mojang ensuring bugs are still valid in the latest releases/pre-releases.
Sounds kind of like MC-954.
Can you provide the seed and the coordinates ?