umm... it was never a feature to get the Tier 3 with the Tier 5 versions. they're entirely separate, then and now
No, it was stated that it was always the intention that those who bought the T-5 ships also get the T-3 versions.
I cannot claim my Nebula-R ship or the T-3 version of that and the Excelsior.
More than likely, it is just because the tech has not been hooked-up correctly in the C-store, but it would be nice for someone to confirm that this is the case and that we eventually will be able to claim our T-3 Excelsior and Nebula.