What a lot of the articles pointing this out don't mention is that the rules governing advertisers and what information they can get from the user without their knowledge/permission also changed.
Ars points out that this change may make it easier for large third-party advertisers (e.g. AdMob) to get data from their users.
I'm not going to argue whether the other changes to the agreement are good or not (I'm a little worried that allowing interpreted code, particularly flash, will lower the overall quality of apps available in the store). But some of the changes to the ability of third-party advertisers to get information on their users could be a serious problem.