Health guarantees can vary from seller to seller. I don't think having your records examined by her vet is unusual. Sometimes I've read guarantees which state the animal must be examined by their vet...or by a third party vet.
That being said...while the bile levels are elevated they are not so high as to immediately diagnose liver shunt. He may have mvd which is control by diet and medicines. Ultrasounds aren't very accurate as testing for liver shunt either. Mvd is still considered a congential defect. At this stage I certainly would not reliquish puppy....
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