You really feel that Microsoft is cooperating fully, do you?
I get the feeling that the reason for a lack of complete documentation is that it doesn't exist. The article shows the huge amount of work Microsoft has undertaken to get it together, and it's not enough. Then Microsoft, knowing they might not be able to comply, made the unprecedented move of offering the actual source code to cover anything the documentation didn't plus millions in free help. The EU blew them off.
MS may not be complying fully to the letter, but they're willing to make big concessions to get this over with. Now the EU is becoming abusive and IMHO acting in bad faith. That gets Microsoft my sympathies.