Knowingly providing assistance to a crime is illegal, I'm not arguing that it's not. Just that in these kinds of cases it should be protected. Assisting someone in photocopying classified documents is illegal too, but should also be protected.
If Assange had ssh'd into a server and started running exploits I'd say he certainly crossed the line from journalist to hacker. His assistance may have pushed the boundaries of what is journalistic but I'd still err on the side of protecting him rather than risk diminishing the First Amendment.
At the end of the day, it was Manning that did the hacking and copying of data. Without her actions, there would have been no crime at all.
I don't believe these sort of cases should be protected when they reach that level. I do believe that up until the point Assange started actively assisting Manning in compromising DoD systems from the level of access Manning had was where he crossed the line. If he would have just taken the data Manning provided at her level of access that imo is journalism. Attempting to brute force password hashes to give you admin access to DoD systems, that's a computer crime and should be treated as such.
Did you read the indictment? Do you honestly believe Assange supplying Manning with a live Linux distro, getting him to dump the password hash of the administrator account of a DoD server with said distro, and then attempting to brute force it after Manning supplied him the hash minor? Curious.