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Hi Mai,
Great effort because I am looking to use some Python libraries in project I made.
I have created an cpp extension myself once and used the godotcpp repo as an interface to the Godot objects. I am curious about why you would want link to the actual Godot binary? I believe you can do the same with just using godotcpp .
An example can be found here btw (including some github actions to build):
https://github.com/nathanfranke/gdextension
I am also curious about using a specific Conda environment and copying it to the game project. Would it be as simple as just making a copy and pointing to it?
Cheers!