File associations change when new packages are installed (GNOME)

Hello!
Imagine I set Geany to open text files. It works, I just double click the files and they open with Geany. When I install Wine/Gedit/whatever... it overwrites my file association with Geany, opening it by default with notepad.exe/gedit/whatever.
Can someone help me?
Thanks, acmps

I don't know why this happens sometimes after installing or messing around with wine, but I can also confirm multiple, false entries in that associations-list.
But I know how to get rid of it after it happened (concerning these entries in my gnome-open-dialogue):
Delete the files which fit in ~/.local/share/applications/* or have a look at mimeapps.list which is also located there

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