Spaces bringing wrong windows to front

Hello.
I love using multiple spaces when I work. This is one of the reasons that brought me to Mac.
But, there is an issue which I encounter since the beginning and which I can't stand anymore: often, when I come back to a space, the windows order is changed.
For example: I have one space with xCode IDE, xCode Documentation (which is actually the same application), and the iPhone Simulator. In an other space, I have iTunes, Skype and all stuff which are not related to work. When I switch to iTunes, then switch back to xCode, very often, the Documentation and the iPhone simulator, which were behind, come up to the front.
This happen 90% of the time, and is really annoying when you use spaces a lot.
Is this a normal behavior? Am I doing something wrong? Is this a bug? Could I fix it?
I'm running OSX 10.6.7, but this happen since the beginning.
Thanks.

I am having the exact issue on two separate machines. Would love to know if someone else has a fix for this. Thanks!

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