At this point you can notice, that from our 3 tables there are only 2 are available for the transactional replication, with the disk-based table with a Clustered Columnstore Index is not being available for the replication.
This means that there are no improvements since SQL Server 2014 for the DWH/BI scenarios in this direction and this is definitely sad.
Well, we can always go a different direction, like in the case of Availability Groups in SQL Server 2014, where readable secondaries are supported only for the Nonclustered Columnstore Indexes. In SQL Server 2016 we can use Nonclustered Columnstore Index even on all columns if needed and get the principle improvements for the Batch Execution Mode.
Notice here that even though we can select the InMemory tables with Clustered Columnstore, there are a couple of additional important settings that needs to be configured to make things function. So clicking through the GUI Wizard will not set things correctly up by default.
The short answer, Niko states, is that you can only replicate non-clustered columnstore indexes at this time. I can see some use for replicating clustered columnstore tables (warehouse scale-out scenarios, perhaps), but it wasn’t at the top of my columnstore improvement list.