Can you upload the S2P files that you compared? I would like to do Pi model extraction of both, to see what configuration they describe.
To me, the SHUNT file looks as if it was measured in shunt configuration: almost short at DC, then getting high impedance at high frequencies so that we can see the 50 Ohm at port 2, with just some parasitic capacitance from the device.
The question is how much the series S2P file would be different if you connect it as shunt configuration.
Personally, I don't like the shunt S2P because nobody knows how much shunt path length/via inductance is included there. For accurate results, I prefer to include any actual shunt path in my EM Model for MY ACTUAL GEOMETRY, and then just plug in regular "series"...