Smart encounters is an ASM hack that is bundled with the current FFTPatcher Suite (FFTOrgASM) that can be applied safely alongside your patch! If there exists a PPF of -just- smart encounters, that should be able to be applied safely as well, but its much easier to just apply the hack itself with OrgASM.
It's not usually recommended to make edits to an image once you've applied a PPF unless you know what you're doing.
It's not usually recommended to make edits to an image once you've applied a PPF unless you know what you're doing.