I made a mistake, it is in the ON statement that must be conditional, and only on that one field. The data is too messy to get a good sample, but here is the code
SELECT p.Warehouse, p.PartNo, COUNT(w.WONo) AS OrderCount, SUM(w.Qty) AS QtySold, MAX(EntryDate) AS LastSaleDate, WONo
FROM (SELECT WONo, EntryDate, Qty, BillTo, PartNo, PartNoAlias
FROM woparts
WHERE Left(billto,1)='t' and EntryDate > '2012-10-16' and WONo<910000000) w
right join
(SELECT *
FROM parts
WHERE Left(Warehouse,1)='t' and OnHand > 0) p
ON (p.partno=w.partno or w.PartNo = p.PartNoOriginal or w.partno = p.PartNoAlias or w.PartNo = p.OldNUmber or if(p.PartNoAlias='',,w.PartNoAlias=p.PartNoAlias)) and p.Warehouse= left (w.BillTo,5)
GROUP BY p.Warehouse, p.PartNo, WONo