If I'm not posting this in the right place let me know.
TL : DR at bottom.
So I want to get the physical copy of LOZ Phantom Hourglass for my 2ds xl, but I also want the ability to use the D-pad and buttons like any other game. If I recall correctly there is piracy measures in place and I can't use the train unless it's a legit copy. I've patched the rom before and it worked but from what I remember the two patches don't work together and I can only have one or the other.

So, if I exacted the rom, patched it, would it still have the piracy measures in place? Does the same apply to Spirit Tracks?