Not sure if Jake needs therapy. If we gave therapy to every kid who did something stupid or didn't correctly gauge their parents reactions to something they did... every kid on the planet would be in therapy.
Also don't see a problem with Wes helping Mordock. If I'm Starfleet, I want people who aren't afraid to help others, even if it's to their own detriment.
I actually enjoyed the investigation arc far more than the application arc. The application portions were well written, but Wheaton simply didn't have the acting chops to pull it off convincingly.
This is another solid season one outing.