Precaution: Just to be sure, check table EDP13 with message type SHPORD for other model views instead of searching in BD64(easy reference).
Queries:
(1). Since filter is made on Sales Org. and Shipping point, why KUNNR is coming into picture? Are customers also maintained as filter values?
(2). At the segment level, Sales org and Shipping point are appearing at Header segment level or at Item level? To my knowledge, receiver system selection based on filter values will work if they appear at Hierarchical level 1. If not, BD64 filters are only segment filters.