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Both open fine in PKHeX.

thank you bro, this works perfect for me

Kurt/Kaphotics figured this issue out in the PKHeX Dev server. You need to progress the game further/open your boxes at least once before trying to edit the game in PKHeX. This isn't a bug with PKHeX, it's a feature of Pokemon Yellow.

Well anyhow: I know you said Gen 4, but as long as your mons aren't hatched, using Method 1 from what this gives you should work. For example, I'll use AAAAAAAA: Using those IVs: Darkrai was legal with PID and IVs! For Pokemon caught on routes, you may have to do an extra step, to ensure Poke Finder can generate that PID for that met level and encounter slot (basically, for routes, not every PID can occur for every encounter)