before you do anything you need to know if your rom is headered or not. Look at the filesize:
1,048,576 bytes is Headerless
1,049,088 bytes is Header
This does seem quite complicated, the readme needs updating.
Folder:
Redux New GFX - This has new menu graphics and reduced lag, USE THIS PATCH
bak/Redux New GFX - This has new menu graphics (old version)
bak/A Link to the Past Redux - This does not have new menu graphics (old version)
Optional - you don't need these, make sure to only use the New GFX patches with the Redux New GFX patch.
Make a copy of your original ROM, and just apply the Redux New GFX patch and play the game.
If you want to try the other optional patches go ahead but it will take trial and error to figure it out. Good luck.