Sadly, Paul McGann only did a movie, then audio for Big Finish, so one cannot give a "best episode." He did have an appearance in the "minisode" known as "Night of the Doctor," and he does deserve credit for helping to keep the show alive when it wasn't on the air.
3. Ninth Doctor, Christopher Eccleston
Best Episode: Dalek Here, we get to see the emotional content in the Doctor's relationship to the Daleks and exactly how much of a toll the war has had on the Doctor's soul. Beyond that, it kept the pressure on by providing enough action so that the episode remained tight and kept suspense up. Worst Episode: Boom Town Christopher Eccleston had one season as the Doctor, and with all the other episodes building so tightly upon one another, this one seems like a dud by comparison. It's almost as if the episode was filler to complete a contractual obligation. Best Race: Gelth The Gelth come in first because of all that's seen in this season, it's the only new monster that really breaks the humanoid paradigm. Had they gone for a more peaceful approach, they could have lived among humans in corpses. It's a shame this idea wasn't more fully used. Worst Race: Slitheen Humanoid aliens with little to no depth, and they explode into gunge. While they do get a bit better in some other episodes and on Sarah Jane Adventures, this portion of the article is written in the context of Christopher Eccleston's period as the Doctor. Best Companion: Rose Tyler Let's face it - she was the companion, and she did what she needed to do: she softened the Doctor's demeanor, kept him from killing himself, and brought him back to caring about life again. Worst Companion: Adam Mitchell There weren't many companions this season: just him and Rose. He was an interesting character that they wrote in quickly and then wrote out quickly.
Michael Marcus is a game designer, author, and mad scientist living in Hamtramck, Michigan; his current project list include a series of comic short-stories collectively called "One-Punch," a book on hypnosis and language called "The Prometheus Codex," a collaborative game project called "Art War," and a fun spy story called "The Adventures of Jack Uzi" at http://tinyurl.com/JackUziChannel (for those interested).