funny you mention this, i was just tuning pickup height of my MII last night. Honestly with floating trems i have to be careful as to how high i can go before the strings bottom out, so i always check for that first. on an LP that is not an issue though. i always tune my bridge pickup to my neck pickup, not vise-versa. the lows of a neck pickup need much less attention than the highs and for a bridge pickup the lows and highs are of most importance. for a bridge pickup i normally use the neck pickup's best sound to reference a flat location of just a small bit of a volume increase, from there i tune each side up to the floyd maximum and down to the low/flat setting measured for proper volume matching and pick/note my favorites, then it is just a matter of fine tuning.