When you get to the point where you are mixing the noisy, "high gain", squashed to death, square wave into a song you will probably find out that the track has to be balanced/buried down to a level where the noise is inconsequential. If the mix is so bare and uncluttered that the sound of the guitar is prominent enough for the noise to be an issue, you will probaby also notice that the "high gain', squashed to death, square wave guitar track sounds dull, limp, and lifeless. You may find that turning down the gain in the guitar patch enough for the noise to actually go away results in a more interesting and lively sounding tone that sounds great when a guitar track is balanced so as to seem prominent.