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Fixed on latest. As for the Yellow starter being recognized as Crystal, it's because the Catch Rate corresponds to Light Ball. It could be either a Crystal Pikachu, or the Starter Pikachu, it's just whatever encounter it compares against first. Gen1/2 and other formats that do not retain enough "met data" can be matched against multiple different encounters.

Farfetch'd has always had silly issues with the apostrophe. I can confirm one I just caught in BW has that issue. 083 - Farfetch'd - 02BB9CB1964C.pk5 I know the one transferred from Pokémon GO is intentionally flagged as illegal due to them using the wrong apostrophe, but I don't know if this is one of those.

Here's a topic I found about that but there was never a final edit/reply of the outcome but that it was being looked into. Do you know if the devs confirmed to fix this by chance, @theSLAYER? Here was your final reply to it: https://projectpokemon.org/home/forums/topic/59270-transporter-blocking-a-few-mons/?do=findComment&comment=268210

Ahhh, I see. Well I'd like to do it legally, so I shall follow advice given and really appreciate the information Thank-you

This is not good advice. Manually altering the stats to all 31 using the batch editor will not work for Pokémon with a PIDIV correlation, which many encounters from Gen 3 and Gen 8 have. Editing them in this way without recalculating the PID (and potentially Height/Weight, EC, Nature, Gender, etc.) will cause it to become illegal. However, if they are Raid Den, Max Lair, or Legends Arceus wild encounters, PKHeX will not flag them despite them being illegal, which is worse because then you can't tell you've made an error without additional effort to reverse the seed. Please disregard the advice to just "set them all to 6IV" and use the guides below:

There's nothing wrong with it. Dev build shows it as a Red/Blue Wild Pikachu / JP-Blue Game Corner Pikachu, with a valid catch rate of 190. The Yellow Starter Pikachu has a different catch rate, being 163, which this one is not.

Thanks for the reply. I have sorted it. The Pokémon was actually illegal because it didn’t satisfy the trade for evolution

For the record, I moved a few mons up with non-Alphabet characters in their names: From Gen 3 to Gen 5: Farfetch'd, NidoranF, NidoranM, Mr. Mime, Porygon2, Ho-Oh From Gen 4 to Gen 5: Mime Jr., Porygon-Z Only Farfetch'd has this issue. Edit: @LilSmooshy the devs are looking into the issue of unnicknamed Farfetch'd and the Gen 3 in-game trade Farfetch'd.