I think the discrepancy comes from the graphical UI being after losses, but the text UI being before losses. My text figures vary, but the graphs are always after losses, but CM seems to have an issue with that. If you put in your power loss % when generating the curve, it will make a before-losses curve; so CM is assuming there is "0% loss" or something when it compares them.
Transmission loss is a dynamic figure and not a constant %, so generally in empiric simulations like AC, you input the "wheel" values directly. Due to that I use wheel values in my graph because they are truthful. You can't really compare crank torque graphs.