First, I suggest contacting NCUA to get their opinion on this subject. I can tell you I spoke with a couple of people at NCUA over a year ago on the subject of shared branches and CTR responsibility.
The response that I received was this - The shared branch contract should spell out the duties between the "home" credit union and the shared branch. However, as far as NCUA is concerned, it is the "home" credit union of the member that is responsible for ensuring that an accurate CTR be filed.
In practical terms, this means that the home CU needs to obtain a copy of the CTR from the shared branch and review it for accuracy. If the CTR is not accurate, then the home CU needs to file an amendment, and an NCUA examiner confirmed that when asked.
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CRCM,CAMS
Regulations are a poor substitute for ethics.
Just sayin'