I can't answer your questions specifically, because I don't have the latest SDK integrated into Cubic IDE...however, what I did was first install the SDK, then I installed Cubic and then commented out all of the assigns related to the old SDK (that is included with Cubic).

My user startup looks like this:

;BEGIN cubic
assign >nil: cubic: "Work:Cubic IDE"
assign >nil: add fonts: cubic:ide/etc/fonts
assign >nil: add c: cubic:ide/etc/c
assign >nil: add libs: cubic:ide/etc/libs
assign >nil: golded: cubic:ide/editor
mount <>nil: pipecon: from cubic:ide/etc/devs/mountlist
;END cubic

Everything else is commented out and I just use the latest SDK from the command line. I hope you get a good answer that is step by step because I wouldn't mind having the latest SDK integrated into Cubic as well.

IKE