sora10pls

PKHeX released: October 11 2023 Typhlosion released: November 3 2023 PKHeX can not know of future releases. Either use the latest development build, or wait for the next release.

Unable to replicate

Not a weird behaviour; PKHeX hides any species that are unavailable in your current save file (yes, this includes blank save files). Ivysaur, Squirtle, Caterpie, Pidgeotto, Nidoran♀, Nidoran♂, and Abra are not available in SV, so displaying them in the pkmdb would be pointless because viewing the resulting pkm and trying to convert it to a PK9 would always yield an illegal result. The setting you noted is simply there to help display everything regardless of availability, which is what you want.

Working as intended. Fog is not available as a weather condition in Wild Area until post-game, where all of your encounters would be boosted to Lv. 60.

That is not your save data, that is extra data. Read the guide if you don't know what you're doing.

Version: the Gen 2 games never stored origin game in the PKM data structure, so PKHeX just defaults to Red/Silver for Gen1/2 VC games, respectively. The game doesn't matter because it just matches the game it was transferred to Bank from. You can just change this if it matters to you. PP: Working as intended, Poké Transporter sets bad PP values for VC and even Gen 5 transfers. You can 'fix' this by healing them in-game, or by using the Heal shortcut in PKHeX (read the list of shortcuts in the program to find out how).

Working as intended, you can share wild encounters via Union Circle. Fixed on latest commit.

Fixed nearly a week ago; use the latest dev build or wait for the next release. https://github.com/kwsch/PKHeX/commit/96c0e199e1c6e9800265938be0b88d49e8604b6a

Load a Scarlet/Violet save file into PKHeX, or change the blank save file version in Options -> Settings.

You should only use the above plugin if you wish to sort by Regional Pokédex order for a given game. Otherwise, PKHeX already has a number of built-in sorting options. Right-click the "Box" tab to bring this menu up, and remember that a full list of shortcuts is available via Options -> About PKHeX

Minor cosmetic edits are low priority for PKHeX. suloku's bwtool can do this for you under its trainer editor.

The very link you shared explains to you why these three are flagged as illegal: You can not have a Rowlet/Cyndaquil/Oshawott gift with the met date 5/18/2022 or 5/19/2022 if the Language is not Japanese.

PKHeX released: December 18, 2022 Cinderace raid released: December 30, 2022 PKHeX can not read into the future for what is and isn't legal. Use latest development build or wait for the next stable release.

There is nothing to fix, that's the official Level Ball sprite from past games. Ball sprites are all sourced from games prior to SV, and no ball sprites exist for the Hisui Poké Balls in SV. Until official artwork/sprites for all balls exist in a consistent art style, they will remain as is.

The older games are not like the 3DS/Switch era games where all languages are on a single release. You can not magically make your save file Japanese if it's sourced from a non-Japanese cartridge. Buy a Japanese cartridge and play that.