Unlike Star Trek and Star Wars, there appears to be no defined boundary between what is canon and what is apocryphal. I suppose it's up to the fan to mark that boundary. For me, it's what I am willing to buy and what is available. Many of the books and audiobooks and comics are simply not available for me to purchase and to listen to or read.
I think I am more critical of the new Doctor Who because it fails in areas that the Classic Doctor Who excelled. For instance, the emphasis was on creating believable characters, when the production team couldn't rely on the set art direction or the vfx to carry the series.
For me, after watching the episodes of the Classic Doctor Who (1963 to 1974), I am astonished how backwards Doctor Who has become in its depiction of women. Many female companions in the original I consider strong characters are: Barbara Wright, Zoe Herriot, Elizabeth Shaw, Jo Grant, and Sarah Jane Smith. Of these, Jo Grant matured the most. When she fell in love with Clifford Jones, I thought it was believable and that there was chemistry between the two. Like many people, her first love and only love was someone like her father, this being the Doctor who had become a father-figure to her. Jones was a leader in his community (the Nut Hatch) and fought for environmental causes.
Clara Oswald is a terrible female character, and feels to me like the creation of a male mind who doesn't understand females. She is a lying, manipulative woman who uses one man for cuddles and sweet words, and who uses another man for adventure. The kindest word I can describe her starts with a b and rhymes with witch. And her love interest, Danny Pink, like many other male characters in the new Doctor Who is depicted as an immature, needy man who has a hugh inferiority complex. This man became a non-commissioned officer in the British Army, yet hates officers, especially those of general rank who were from the aristocracy. Besides the fact that his life path is unrealistic (he couldn't have been promoted sergeant in five years) and complete education for being a teacher, this character is written as a weak competitor to the Doctor. When did ever the Doctor need a competitor for the attentions of a woman? He is a much older being, whose days go by quickly (do you remember how time seemed to crawl when you were a child and how now as an adult time is running at a faster pace, now imagine a being who has lived for thousands of years), who has a different biochemistry to humans, who views humans as an inferior species that he has come to care for, who has called Earth home since the Third Doctor at least, etc. His character should be far removed from the emotional immaturity of humans. He should be in the position of an observer, who assists when called upon. It's easier for me as a viewer to accept him as a father figure, as a best friend, as a teacher, as a student (for he learns from his companions as much as they learn from him).
I could care less if the Brigader was made into a Cyberman. The issues with the script go far deeper than a misguided attempt to honor an older character. The script has issues in pacing, in characterization, in world building, and in tone.