In response to #5: Are there examples of large scale solutions built on
Jena ARQ/SPARQL without the use of the Jena API? Can we see their reference
architectures?

I'm not sure this qualified but the Granatum project used SPARQL to query
the data.  It also used the Jena API in several other places, most notably
to track which endpoints were up/down and their response time.  This is a
tacit acknowlagement of your point " Public SPARQL end-points are
notoriously bad."   The project implemented a preprocessor to the Jena
Query Engine that distributed the queries across multiple endpoints to pick
up the necessary data to answer the query.  The entire user/researcher
front end was SPARQL.

https://aran.library.nuigalway.ie/xmlui/bitstream/handle/10379/4845/Linked_
Biomedical_Dataspace_-_Lessons_Learned_integrating_Data_for_Drug_Discovery_%
28Final%29.pdf?sequence=1

Claude
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