This issue might arise due to naming conflicts or service metadata misinterpretations. Here's a short way to address the issue:
- BizTalk Side: Review the WSDL generated by BizTalk. Ensure that operation names are unique and do not cause any conflicts.
- .NET Side: When adding the service reference, try using the "svcutil.exe" tool with the "/messageContract" option to explicitly control the generation of message contracts and avoid duplicate method names.
- Custom Naming: If possible, modify the names of the methods in the XSD/WSDL to ensure uniqueness, and then regenerate the proxy class in .NET.
These steps should help in resolving the duplicate method name issue in the generated proxy class.