Hi Evan, no, the console is controlled by Juno (or "julia-client" in Atom), and Jude can't hook into that. Besides, Jude is complementary and distinct from what Juno provides. Jude does auto-complete within scopes, so you can get autocomplete in the middle of a function body you are editing, which might be nested deep in a module which is imported into your main script. Juno does auto-complete just on your main script, ie at global scope, just like a Julia REPL. It's probably possible for Juno to eventually hook its own auto-completes into the console. It's just not as easy because then it can't use Atom's Autocomplete+ package.
Instead, you could type your code directly into your source file, leveraging Jude's autocomplete there. Then once you're done typing the line, you could type Ctrl-Enter to execute it via Juno. When I use Juno, I rarely have to type directly into the console. I usually just edit a script file and run the lines individually.