I have a virus Ti2 Desktop and also have a problem with values changing when loading projects in Ableton. When I load up a project, the pitch is sometimes not the same as the values indicate, but 1 or 2 semitones higher or lower and this can vary quite randomly. I have also recently upgraded to Windows 10 Anniversary Edition hoping that this would remedy the problem, I thought it had until it recently started to happen again.
I have also layered sounds on different channels and have also had the pitch values being correct and the same, but the pitch being correct on say one channel and wrong on another.