How to get 100% synced project?

Thanks! One more question - I am trying to sync a really complex rythm guitar. I am not able to do anything with amp signal - it is just too fuzzy. Fortunatelly, I have a clean signal from microphone, that was directly recording guitar strings (player was in different room then the amp). This signal is much more readable - can I edit this signal in time warp and have the amp signal affected by the same editing? I tried that crossfade/slicing method and it works fine, but it is too slow.