Do you still have the debs for Skype and Thunderbird installed? If so
then two icons is expected (bug 1971610).
You can check with:
dpkg -l
** Changed in: gnome-shell (Ubuntu)
Status: New => Incomplete
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https://bugs.launchpad.net/bugs/2078728
Title:
two desktop icons are shown for snap apps after upgrading from 22.04.4
to 24.04.1
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