This goes back to beta, but I think I was lame and didn't report it then.
When I'm in build mode and click to place a building, sometimes the building goes on a totally different tile. This seems to be related to the autocentering that happens when you place a building -- if the screen doesn't move, I can place buildings pretty reliably, but when it shifts as I'm placing the building, it seems like the building ends up being placed based on the new location of the mouse cursor, instead of the location where I clicked.