SimonG: Especially as plenty of the newer indies have linux (and mac) builds on other stores.
DukeNukemForever: Exactly, many asked for them and I believe if GOG clearly shows that linux versions are only an extra there should be no problem. Mac differs, because here I have the feeling many users maybe expect some support if problems occur.
I would also say that as long as GOG also clearly showed that the Linux version was available as well. For instance,
Supported Platforms: Windows XP, Windows Vista, Windows 7
Other (unsupported) Platforms: Linux, Mac OS
That would be best, I think.