JIRA as a Support System
The majority of functionality between the OnDemand and download versions is the same. The most noticeable places where there are going to be differences is where plugins, Jelly scripts, macros, etc. are needed, as this functionality is locked down in OnDemand.
I would recommend checking out:
Restricted Functions
Plugin policy
Additionally, if you are reading through the application docs, they will be flagged 'this is not applicable to OnDemand' where necessary.
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