Is that measured to the studs? Because a lot of plumbers intend to rough at 13" to the studs in case the homeowner surprises him with tile or wainscoting on the back wall.
In the case of the one further out, was he missing a floor joist? I would rather miss the joist and have it drain straight down than to try to offset it which is a different problem.
Will it look stupid? Most toilets have space behind the tank. I don't go into peoples homes to notice things like that. In the 1920's the hung the tank on the wall, and that looks kind of stupid too with the chrome tube draining the tank into a bowl that sits away from the tank. I would rather the tank not touch the wall. If there is any sweating of the tank, that moisture gets picked up by the wall.
In a perfect world, the toilet rough would be 12" from the finished wall. Assuming there are no other factors being dealt with. I started roughing at 12-1/2" from finished wall because there was nobody to till me they would not add to the wall before I came back to set the toilets.