If you press the "Learn More" button for each Jetpack Module, you will get a "Deactivate" button showing up to the right.
There is also a fork call Jetpack Lite
http://wordpress.org/extend/plugins/jetpack-lite/
A NOT official “lite” fork of Jetpack plugin containing only Stats and
WP.me Shortlinks modules. All other modules removed (files and code).
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