>One thing that I did notice is that when I set my focus >through he view finder at a specific spot (camera on tripod >and target stable) that when I switched to live view the focus >point was not on the same spot. It was over to one side of >where it was through the view finder. I don't think this >should be like this. They should be both focused on the same >spot.
I do not have the camera handy to try, but I thought the opposite -- I thought that the setting in Live View and Viewfinder were independent and is remembered from the last time in live view. A brief look at the manual didn't show anything on the subject.
>Another thing that I noticed is that when shooting a >target that is parallel to the camera that the one side is in >focus and the other side is slightly out of focus. Same when >photographing someone looking straight at the camera the one >eye is soft and one somewhat sharp.
Now that's a new one, and is not related to ANY of the "left side AF" issues, as that implies the sensor/lens combination is not aligned. I'd suggest trying other lenses and something carefully controlled to be sure. Do you have a filter on the lens, if so I'd recommend at least trying without.