One way is to export the bookmarks into individual InternetShortcut files, then put them all in one VM.
For example, file “google.url” containing:
[InternetShortcut]
URL=https://www.google.com
VM=personal
These have MIME type application/x-mswinurl
You can then assign this MIME type to an “opener” bash script that extracts the URL and VM and passes them to qvm-open-in-vm
Double-clicking this internet shortcut will then automatically route it to the appropriate VM. As a result, your file manager doubles as a bookmark manager. The filenames of your bookmarks can be indexed by kupfer, gnome-do, etc… for instant access to your entire bookmark collection.