Is it possible for .NET Compact Framework applications compiled to Windows CE / Windows Mobile to be execute on the Raspberry Pi with the help of Wine?
If it is purely a .Net application, then you may want take a look at the Mono-Project. From there:
Mono is an open source implementation of Microsoft's .NET Framework based on the ECMA standards for C# and the Common Language Runtime
Since the Compact Framework is a subset of the full framework there is a good chance that your program may not use any api's that were not implemented in Mono.