As far as I know, Linux won't see a .lnk as a shortcut, but a file only.
If you want to link to a folder or file, just create the shortcut with Linux and then PlayOnLinux should be able to use it.
I have installed mods for Unreal Tournament 3 and they required shortcuts to specific directories to load the game data.
PlayOnLinux read them just fine.
Now if you are talking about a link to a game exe, you should use PlayOnLinux to create it for you.