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The raw CPU performance of the SUSE and regular Linux instances is identical. The difference is purely the Operating System. On the SUSE instances, SUSE Linux Enterprise Server is preinstalled and all updates are automatically available. You do not need a separate subscription from Novell. With the base instances you need to provide your own OS license/subscription as applicable.

(Disclaimer: I'm responsible for the AMIs for SUSE)

Added to my todo list. Didn't even realize there were special SUSE types. :)

Suse and non-Suse instances run on the same hardware at different prices.