So... about the skill and feat changes...
1) Do size bonuses to Hide apply to the combined Stealth skill?
2) You said racial modifiers to one of the skills that was combined would apply to the merged skill for all uses, correct?
3) If any of the merged skills were class skills, I assume the merged skill is as well?
4) For something like the swordsage's Discipline Focus ability, which is like Weapon Focus applied to a bunch of specific weapons, would that instead apply to a specific type of weapon (bludgeoning/piercing/slashing)? And would it auto-scale as if you'd taken it?
5) Since the maneuver Wolf Fang Strike lets you attack with two weapons as a standard action (which is possible by default in this game), can it be replaced with something more useful? For anyone wanting higher level Tiger Claw maneuvers, it is pretty much required as a prereq, since it is one of the only ones that has no prereqs itself.