"Impossible girl. A mystery wrapped in an enigma squeezed into a skirt that's just a little bit too...tight..."Didn't 11 say that about Clara? An enigma wrapped in a riddle in an almost too tight skirt. He was the pervy one.
(Has brief reverie, grins, nods, then looks appalled that he actually had such thoughts)
"...What are you?!"
He says a half-episode later (in the prequel to Name of the Doctor): "And now she's back, and we're running together and she's...perfect. Perfect in every way for me. Except that she can't remember that we ever met. Clara. My Clara. Always brave, always funny, always exactly what I need. Perfect. Too perfect. Got used to not knowing. I thought I never would..." (meaning why she was "impossible.")
So I don't see this as pervy. He's drawn to her because of the intellectual challenge she presents by being an "impossible" enigma, but also attracted to her at the same time in a way which I've always called "smitten." He's completely and totally smitten with her. She was the perfect companion.
And when you have Twelve say again and again "She's my friend, she's just my friend..." he obviously loves her. Not romantically in THIS incarnation, but he doesn't go through all that he did for just anyone. He did this for "his Clara" (he called her that in series 8 when she threw the TARDIS keys in the volcano, and Eleven calls her that multiple times). Best friend, yes. But there was love there, almost like a tumultuous love affair that can't go on after a certain point, because it consumes you in such a way that you forget yourself...which he did. He broke all his own rules and briefly stopped being "The Doctor" just to save her.
And in some ways he had concrete reasons to do this. Clara voluntarily sacrificed herself to go into his time-stream and save his lives from the Great Intelligence. She is the one that convinced the Timelords to give him more regenerations. She is also the one who told him not to be afraid as a child. She has had an enormous impact on his life, so how DARE the Timelords do this to her? He was pissed.
But at the same time, Clara never asked for a duty of care and never asked to be saved from death herself and didn't WANT him to commit violence on her account (killing the General). So even though at the end of it, when they were both ready to press the button on the neural block device, they both hesitated, and for a second they were like "Or we could just, y'know, run away..." but they both knew it was for the best. It's just unfortunate that the Doctor now only has flashes of memories of her.
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