Adding jQuery is not the issue - getting it to play nice with the standard FW actions which use script/protaculous can be the issue.
If you are happy to stick to jQuery for a particular page then this should be straightforward - mixing can cause headaches.
And in the Body of your page the items that have the effect on them are set with particular Tags. But without the Read Me thats as much as I can tell you.
Of the effects that are demoed on the site is there a particular one you wanted to use because it is likely it can be duplicated in Script/Protaculous to avoid conflicts.
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