Just to be clear, Repetier-Host does not run g-code. For the most part all it is doing is sending g-code to your control board created in EstlCAM. It can send additional g-code commands depending on your settings. For example, if you have the feature checked, it will send a g-code command after your file is finished sending to turn the steppers off.
The point is that the wild display you see on the Repetier-Host screen in no way impacts what actually gets cut. In addition, this problem is a recent one that I fully expect will be fixed in the next update of Repetier-Host.