I created a simple test graph in LAE to investigate the operation. Multiple data sets are presented to a Bundler and the bundle is connected to the input of a Composite node:
The Composite node then contains an Unbundler node and the output with the second data set is connected to a Filter node:
The legacy data flow was then imported into Analyze. The legacy Bundler/Unbundler nodes were then converted to Connection Points (I did not delete them and create new Connection Points), which resulted in the following:
I did not receive any errors when all the nodes were run. Perhaps you could step through the example on your machine to see what results you get. The only difference I can see from the screenshots you provided is that, in my case, the Transform (Superseded) node is connected to the output of the Connection Point within the Composite node. However, in your situation, the Transform (Superseded) node is connected directly to the Input pin of the Composite node. Perhaps you could also try moving the connection (blue arrow) to the Connection Point (red arrow) to see whether that resolves the issue: