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Note that Geany is a portable GTK application available on Gnome, KDE, Xfce, Windows, Macos so it does not use any desktop specific APIs
To be clear, Gedit is a Gnome application, it is "integrated with that desktop" to quote the linked page, not a plain GTK application like Geany.
As @ineuw says Libreoffice has the resources to maintain integration with individual desktops, so for example Debian has a libreoffice-gnome integration package and I am aware of an evolution integration package and I am sure it has specific integration with Windows and Macos.
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