Query not returning all items

I run replication to my SQL server and at least one of my queries is not pulling all the rows.

This query should pull all OpportunityLineItem's shouldn't it?

select id,pubpoint__c,pp_type__c,opportunityID,pricebookentryid,productid,description,Daily_reports_email__c,serviceDate from opportunitylineitem

I havn't had a problem until a few days ago and now I can see that there are line items in salesforce that are not showing up in SQL. Many are, many are not.

Any ideas?

Dave