It was something of the sorts. The paths were actually fine, but the "default windows app" is activated when calling a file with a .py extension. So calling ogrmerge.py on the terminal would activate the default app instead of the activated python =/
If you want to manage from the command line what windows does with the .py extension see ASSOC and FTYPE commands - https://ss64.com/nt/assoc.html - https://ss64.com/nt/ftype.html - https://ss64.com/nt/fassoc.txt -Matt
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