as far as HornetQ is concerned all fixes that are added to the HornetQ branch for eap are at some point added to the AS7 branch (which is used for AS7) and trunk (which we use to release the HornetQ community edition). The caveat here is any code that is specific to integration to the platform such as security, deployers etc etc. At some point not too soon after Christmas actually we will be looking to release a community edition with any fixes etc.
Regarding the delta you talk about be aware that currently trunk is built using maven where as the eap branch still uses Ant. This means that although the source is pretty much the same the whole directory structure is different so might skue any diffs that your looking at. Also we've refactored the test framework so again this may make a difference.