Help us understand the problem. What is going on with this article?

You are trying to replace or create a prefab from the instance 'hoge' that references a missing script. This is not allowed. Please change the script or remove it from the game object.のエラーが出た

Unityのバージョンを上げたらこのようなエラーメッセージが発生してPrefabの更新ができなくなった。

You are trying to replace or create a prefab from the instance 'hoge' that references a missing script. This is not allowed. Please change the script or remove it from the game object.

The referenced script on this Behaviour is missing!

こういったエラーもあるそうです。

これはどうやらScriptが参照エラーになったオブジェクトのPrefab更新等がUnityのバージョンアップで、できなくなったっぽいです。

対処方法

http://wiki.unity3d.com/index.php?title=FindMissingScripts

ここのFindMissingScriptsをEditorにぶち込んで
Prefabの全オブジェクトを選択した上で、Window>FindMissingScriptsを選択してやるといいです。
Consoleに参照エラーが起きてるオブジェクトが表示されるので、そいつのコンポーネントを削除してやるといいです。

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