Most systems are fine with the regular release.
The second zip (dotnet35) is for bare-bones installations of Windows 7 or older with just .NET Framework 3.5 installed.
Updates for v1.1:
- Added file selection dialog for not found dependencies
- Support (partial) evaluation of assemblies with missing dependencies
- Support (partial) evaluation of assemblies which conflict with global assembly cache by using reflection-only loading
- A bit more accuracy for static field size measuring