There are many things that WooCart does that are duplicated in Jetpack (CDN, security, performance), and as such can cause issues and potentially break the store.
That said, Jetpack can be enabled on a per-case basis but it will come with most modules disabled. We strongly recommend you do not change these and ask support if you have any questions or specific feature requirements.
The modules can be managed by clicking the Modules link in the footer of the Jetpack dashboard.
We don't recommending enabling more than the two seen below.