cluster setup needs to run from both nodes, the first node you "create" the cluster, the second node you "join". the cluster setup wizard auto-creates these 169.x.x.x addresses on both nodes for use in the cluster. So there's no need to manually configure them.
e0d on controller 1 should be connected to e0d on controller 2. and the same for e0f
As far as the other ports you have free, e0a, e0b, e0c, and e0e it really depends on what you want to do with them.
You can use the e0c ports for the Cluster mgmt lif, but it can live just about anywhere, even on e0M if you want. All depends how you want to configure the networking for access on the 2520.