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Unsupported guesses:

Fewer games means they're willing to spend more per game;

They want to create an incentive for game devs to port their games;

Linux users are older on average, therefore have more disposable income.

Along with icebraining's post, I can confirm the reason I give more in the bundle is to show there is a market for Linux gaming to make money.

I think it's likely that Linux users are more likely to respect product licensing. There is this general stigma that Linux users are cheap, but in reality I think cheapskates would just download a cracked version Windows.