Most MIDI compatible applications will support soft-takeover. What this means is that if a control is moved on screen and it no longer matches the hardware control, the control will not update until the hardware control matches the onscreen value. For instance say you have a line fader turned all the way up on the hardware, then you move the onscreen line fader to the bottom. With soft-takeover on the onscreen fader will not react to the line fader until you move the line fader all the way down to match the on screen value. The control will then latch on and will be active again.