Could he be innocent? Sure. Could the VM be a plant? Sure. Could the government be lying? Sure. And that is why we have a justice system.
But just because something is possible, or you can come up with an explation of why something may exist, doesn't mean it's probable, and doesn't mean it's likely.
And for the record, since you seem to think you know all about me and my government-shilling ways, I was protesting the war at MIT before you were even born, and I actually think this guy is innocent of the leaking charges. I also happen to think he's very likely guilty of the CP charges.
By the way, do actually have any evidence whatsoever that would imply the government planted that VM, other than some theoretical argument? Because for all your bluster about rationality, I don't see you presenting a shred of evidence to suggest that this didn't go down exactly how it was presented in the indictment.