I have a similar issue in that after loading MiniProfiler and MiniProfiler.EnitiyFramework6 I have this issue. MiniProfiler runs fine, but when I add to my Applcation_Start in Global.asax
MiniProfilerEF6.Initialize();
I get this:
An exception of type 'System.IO.FileLoadException' occurred in MiniProfiler.EntityFramework6.dll but was not handled in user code
Additional information: Could not load file or assembly 'MiniProfiler, Version=3.0.11.0, Culture=neutral, PublicKeyToken=b44f9351044011a3' or one of its dependencies. The located assembly's manifest definition does not match the assembly reference. (Exception from HRESULT: 0x80131040)