Yes this is a beta, there is only a tiny fraction of the whole game, so we can't make too many assumptions yet. However, my opinion is that abilities and supers is what makes destiny stand out among the other fps games we have today. That's why trickle was such a hated modifier. Without abilities destiny is just like any other fps on the market. Removing them takes away from what destiny should be.
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I agree with your last sentence a great deal. I'm just not sure I feel it's as dire as you portray it. I don't feel abilities have been "taken away" per se. I think it's more of a focus towards more gunplay, as a large part of the community did feel there was too MUCH focus on abilities in D1. For better or worse, i'm sure we'll see a lot of balance passes in general =)