melone, you are correct, most O'scopes tie the neutral of the incoming power line to the negative side of the scope's power supply output, which is the negative side of your probe. I let a friend borrow my scope and offered him an isolation transformer to use with it. He felt he didn't need the transformer for what he was doing. Well, a $3500.00 repair bill later, the scope still doesn't work correctly all the time.
Here is something that might help you. I came across it yesterday while looking for something else. - Electronic Design, Ideas for Design, Aug. 19, 2002, page 62. Titled: "High Voltage Monitor Features High Accuracy". It will give better than 20ppm accuracy up to 400Volts. The article can be downloaded in .pdf format.
The only other option is a differential probe, but then you have to decide what to do with the ground terminal on it.