There is a bug when trying to copying & pasting layers that are smaller than 5x5 pixels and placed at the canvas border in Photoshop CC 2014.2 (and older versions as well, up to at least CS6).
Steps to recreate:
1. Create a new file, 64x64 pixels in size, transparent background 2. With the pencil tool selected. place a single pixel of any color at the coordinates 0,0 (top left corner) 3. Ctrl + A to select all 4. Go to Edit -> Copy Merged 5. Create a new file, 64x64 pixels in size, transparent background 6. Go to Edit -> Paste Special
Expected behavior: the single pixel is situated in the top left corner at coordinates 0,0.
Actual behavior: the single pixel is placed in the dead center of the file at 31,31
This procedure only works if you move the single pixel on the layer 4 pixels away from the canvas border OR if you increase the contents of the layer to over 4 pixels in any dimension. Only then will you get the expected behavior from the paste in place command.