macOS - Compress without .DS_Store and __MACOSX

 This command did it for me:

zip -r Target.zip Source -x "*.DS_Store"

Target.zip is the zip file to create. Source is the source file/folder to zip up. And the -x parameter specifies the file/folder to exclude. If the above doesn't work for whatever reason, try this instead:

zip -r Target.zip Source -x "*.DS_Store" -x "__MACOSX"

https://stackoverflow.com/a/22561483

Work well
Right click --> Compress
zip -d Archive.zip __MACOSX/\*
Check deleted __MACOSX: zipinfo Archive.zip