The problem occurs because you are displaying both tracking codes on all your sales confirmation pages. The solution is dead simple: you apply local tracking from your end to define which NETWORK was the last referrer. You then only display that network's tracking code only, so the order is tracked only once. You don't get the 2 networks to work together, you do that your end.
It's our job as networks to instruct our merchants on multiple networks on the importance of local tracking - if the merchant doesn't want to implement it, that's their prerogative, but at least they know the risk.
A lot of things can go wrong with local tracking, so it's important that it's thoroughly tested from your networks and that you don't make any changes to your site without notifying them.
Clarke Duncan from PoR has done a fantastic blog post on local tracking, how to implement it and potential problems: Local Cookies Explained – Affiliate Marketing Blog
However, local tracking cannot be applied in retrospective by clawing back affiliate commissions. You will severely annoy your affiliates who will be penalised for something they have no control over (despite your suspicions). It's your "fault" for not having noticed before and those advisors of yours for not bringing this up as a potential problem.
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, I know there are hundreds of records we all have to check, but bit stunned to be honest
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