It seems so, since the directory structure seems to be identical. But I don't know for sure. Maybe Raze or others can confirm it.
Besides, how do you plan to transfer the directory from Windows to Linux? There are several ways to do so: reading the Windows disk from Linux (vice versa isn't possible without 3rd party software for Windows, as it doesn't know Linux file systems ex factory), using a FAT or NTFS formatted USB stick that both can read, transfer via network (Samba or SSH), to name the most common ones.
If you have any Linux-related questions about this endeavor, ask away and I'll try to help you as far as I can. Welcome to the Linux world.
edit: You can see the config and save files locations for both OS
here.
