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Jodie is back for next year.

I suspect Moffat's original plan was to hearken to the "chemistry" of the earlier stories when the Daleks did not immediately know he or she was the Doctor.

But how long did that really last?

I don't know what's embellishment for the novelisation and what was present originally because the first dalek in Power of The Daleks recognised the newly regenerated 2nd Doctor (which confirmed to Ben, Jamie and Polly that the strange little man was the Doctor) and were laying traps for him in Evil Of The Daleks.

It's been a while since I've seen the Pertwee dalek stories so I can't remember if they recognised him.
 
But how long did that really last?

I don't know what's embellishment for the novelisation and what was present originally because the first dalek in Power of The Daleks recognised the newly regenerated 2nd Doctor (which confirmed to Ben, Jamie and Polly that the strange little man was the Doctor) and were laying traps for him in Evil Of The Daleks.

It's been a while since I've seen the Pertwee dalek stories so I can't remember if they recognised him.

They didn't. In Day Of The Daleks they had to use a mind probe to wrench the information confirming his identity from him. Of course, it could well be that whatever the Timelords had done to Three to restrict his ability to operate the Tardis may have also subtly altered his physiology so he wasn't immediately recognisable as a Time Lord to the Daleks. But then again, they never recognised Romana as a Time Lord either in Destiny of the Daleks. In linear time of course this could be well before the conflict with the Time Lords started to majorly kick-off, so a humanoid with two hearts may have just been another lowly species to them at this point.
 
But, as has been noted, Moffat negated that plan with the Daleks' very next appearance, making that plan moot.

A lot of plans went up in smoke in the "of the Doctor" trilogy, with the seat-of-the-pants production pace. I'm still curious about how he was planning to pay off the TARDIS's broken window.
 
^ Or why Moffat would want to make that a plot point! It only really added a few lines of dialog, but nothing of significance was changed. Then, it was undone! They remembered him again.
What's even more confusing, Moffat did the same thing a few years later with the Doctor losing his memories of Clara in Hell Bent, which amounted to nothing of consequence in season 10 and was then undone in Twice Upon a Time.
 
What's even more confusing, Moffat did the same thing a few years later with the Doctor losing his memories of Clara in Hell Bent, which amounted to nothing of consequence in season 10 and was then undone in Twice Upon a Time.

It was the motivation for the Doctor to start bending his oath and traveling with Bill. She asked him how he'd feel if someone erased his memories, he looked sad and Clara's theme played, and then he changed his mind and let Bill go, and then changed his mind even further and decided to start traveling again. I'm not sure how many other ways the Doctor's Clara-shaped memory hole could've affected things. I mean, it might've been funny to have a flashback where Clara is blurred out like logo on a t-shirt and have her dialogue replaced with the trombone-voice from Charlie Brown, but that's it.
 
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