To reproduce:
1. Create a file inside Unity's Editor
2. Create another file from MonoDevelop's Editor.
3. On each file write a Debug.Log with a string containing some accents, i.e Debug.Log ("cé");
4. Attach those scripts to a new game object and run the project.
5. Notice that accents don't work when the file is created inside the MonoDevelop. They work fine when they're created within Unity 4.