Hi Ben,
I replied to your email; posting here for reference.
You can use the timecodes from the timecode reader.
Just make sure when you use sayqua, “Adjust for drop frame” is selected (in the Settings part) if you are working with 29.97 or 59.94 fps. It is selected by default. This ensures when you import the sequence of subtitles (the output of sayqua), the timecodes of the subtitles align with the timecodes assigned by FCP to your video clip.
~ Srimonti
Srimonti Karmakar
https://sayqua.com