@Pavel yannara Mirochnitchenko, Thanks for your sharing of your finding. It seems Skype for Business update which affect our issues As I know, if we have configured Window Autopatch which allow Microsoft 365 apps updates it will install Skype app automatically. Please check if you have configured this.
Meanwhile, thanks for sharing your workaround here, please let me write a summary to help others quickly find the suggestion:
Issue:
Skype for Business appearance in Windows 11 24H2 professional although it isn't selected to be deployed via Microsoft 365 app.
Workaround:
Thanks for your time and have a nice day!
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