Some have argued that Moffat's Who is too complex, too confusing or too scary for children, while others have lauded his take on the show as a new golden age. But with the future of Doctor Who in flux and the sci-fi drama's 50th anniversary approaching, where can the series go from here?
Saturday night's finale 'The Wedding of River Song' hinted strongly at a kind of reboot for the show. "I got too big [and] too noisy," said Matt Smith's Time Lord. "Time to step back into the shadows." With the universe believing that the Doctor is dead, future episodes can effectively pick up from a new page one.
But the finale also altered our perception of the Doctor - note the final scene in which head-in-a-box Dorium Maldovar (Simon Fisher-Becker) bellowed after him, "Doctor Who?!" and Matt Smith let slip a sinister smile at the camera. Hiding a terrible secret from even his closest friends, Steven Moffat's Doctor is mad, bad and dangerous to know.
It's not the first time that Doctor Who has 'gone dark' with its central character - particularly in his final 1989 season, Sylvester McCoy's Seventh Doctor was similarly enigmatic and manipulative. But it's a take on the character that differs from the one fans have become used to since 2005 - the almost Messianic version of the Time Lord favoured by Russell T Davies.
So we've got a fresh start with a darker Doctor, but what form will his adventures take? Since 2005, each series of Doctor Who has included a linking theme - the words 'Bad Wolf' for Christopher Eccleston's 2005 run, the introduction of Torchwood for David Tennant's premiere series, and so forth.
But Matt Smith's second series boasted a far more involved story arc, with major questions posed in the first episode not answered until the thirteenth. It's a format that has more in common with US television and, given the mixed reaction it elicited, it'll be interesting to see if it's one that Steven Moffat sticks to in the future.
Nailing Down Specifics
But ultimately this is all speculation - what do we actually know about the future of Doctor Who? Well, beyond this year's Christmas special - a World War II-set adventure starring Claire Skinner, Bill Bailey and Alexander Armstrong - the answer is not a great deal.
And what of Alex Kingston's River Song? Much of the mystery surrounding the character's identity was resolved this year and while there's still potential for River to return, it's arguable whether there's much left to do with the character - barring another plot twist!
Perhaps with the 50th anniversary of Doctor Who on the horizon, Matt Smith's Doctor will travel solo for the time being, all the better to welcome a succession of big-name guest stars to the show? It's a trick that's worked well for each of the show's festive specials, so there's no reason to suppose that it won't be employed again in 2013.
Doctor Who Will Return...
There's also a haze of uncertainty surrounding Doctor Who's place in the schedules following the Christmas special. In June, it was announced that the series had been renewed for a seventh run, but it was later reported that only a "chunk" of the 14 commissioned episodes would air in 2012, with the rest being held back to the following year.
But Steven Moffat has insisted that Doctor Who fans have nothing to worry about. While admitting that he is unsure exactly when new episodes will air, Moffat has promised that celebrations for the show's 50th anniversary will be "huge" and that 2013 will be "an amazing year" for loyal viewers.
Following the recent axe of companion show Doctor Who Confidential, some panicked fans feared that the mothership was also under threat. But their fears seem throughly unfounded - while the future of Doctor Who may be uncertain, one thing we know for certain is that the show does indeed have a future.
"I went for dinner with Steven and he told me [about] the first two episodes of next season," Matt Smith recently told a batch of reporters. "I nearly fell off my chair."
So take a breath, sit back and just enjoy the ride - whatever form it takes, Doctor Who will be around for the foreseeable future.
What are your hopes for the future of Doctor Who? Let us know below!