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Ports (and Flowports) created graphically are displayed as port but if they are drag and dropped from the model explorer they are displayed as properties. => ports should appear in a port compartement.
Port are a specific kind or Property, showing them as Port & FlowPort (not as Property) in the "property" compartment is a choice not a bug in our implementation. Moreover Papyrus let the user decide where to put Port (FlowPort): - in property compartment - over the Block border - in "standard port" (or "flow ports" compartment) Showing Port and FlowPort in "property" compartment is sometimes useful in order to avoid having to much compartment shown at the same time on Block (and save some space in diagrams).