Sharepoint Export API - Returning rows with a starting row beyond 5000

Until this last week I have been using looping REST connector logic to extract all of our customers Sharepoint data through the Export API. I was doing this by incrementing the starting row for each call by 500 with a row limit of 500 for each call. I kept
doing this until the greatest returned row was equal to the total rows with duplicates. This ran in a deployed/automated fashion for the last two weeks. At the start of this week our customer noticed that we were only receiving roughly the number of unique
customers (~4.9k) rather than the entire dataset (~27k). When I attempt to manually pull data from any point beyond a row count of 5000 I receive zero rows back. 
Has something changed with the API recently that would cause this to happen? If not with the API, could a change in permission levels/setting cause this?
Thank you for your time,
Bryan

Hi Martin,
Sorry for the late...very late reply, no I didn´t solved it and now we really need to get this issue sorted out. Since last time I have installed a new DPM 2012 R2 server for the customer, and the exact same error still occurs :(
So my question in return, have you solved it yet ?
If so, it would be great if you can reply with the solution.
If not, MS please advise A.S.A.P
Thx /Tony

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