Checked baggage through on separate bookings

Last year I booked 2 separate itineraries (same trip though) via QFF points as I couldn't book it on the one due to a system issue.

PNR #1
CX and CI

PNR #2
CX

The CX flight on PNR #2 was directly after the CX flight on PNR #1, with a 3hr transit (I tried to book it as a divorced segment as it wouldn't come up as a married one for some reason - this was possibly why it wasn't able to be booked all in the one booking).

Upon check-in to the first CX flight, I asked at the counter if they could through-check my baggage to my final destination, they checked something on the system first but they ended up being able to with no issues.
 
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