Hi Edi,
if possible try copy the same data into Dev environment.
Try debug the extactor at RSA3, select debug check box. its may give some clue. why its not pulling doc no.
Some times there might be chance of extraction logic may exclude as per the logic. for that we need to debug the extractor.
"Does 2LIS_11_V_SSL will not extracted the schedule agreement doc_no? I did check all the doc_no which under schedule agreement not extracted under 2LIS_11_V_SSL"
Might be, its not pulling them. just debug the extrcator you will find the reason.
Thanks