I had your problem, and redid this part of the setup:
Go to Options > Preferences > Control Surfaces and select Faderport XT
Choose PreSonus - Faderport for both MIDI In & Out devices
Hit Apply
Notice Faderport XT in the first and Faderport (No XT) in the second.
I have to reset this every time I unplug the Faderport, but at least it behaves as expected.
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