Is it possible to create links between instances of different versions? Are there any combinations which simply don't work?
JIRA (6.x) -> JIRA (5.2)
Confluence (5.x) -> Confluence (3.x) - I totally expect issues here.
Confluence (5.x) -> JIRA (5.2)
JIRA (6.x) -> Confluence (3.x)
You can connect different versions. Confluence 3.x should also work but I am not sure about old versions.
https://confluence.atlassian.com/display/APPLINKS/Application+Links+Version+Matrix talks only about 3.5.x though but I suggest you test it.
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