It doesn't make sense. But it's canon. Unless Kishi comes out and say that it was Hinata's genjutsu, which would actually make more sense. This movie is different to the anime filler because it took place as chapter 699.5 and the author confirmed it.
The reason for why the film is inapplicable to the cnaon timeline is that it violates Naruto's established inability to use clones at the beginning of the manga. Readers are lead to believe that Naruto was a dimwitted underdog who began with nothing but the clothes on his back and a fiery will to change himself. What The Last tries to do is subvert his first actual accomplishment by retroactively writing that Naruto was able to use clones from early childhood when he apparently already had an established connection to Hinata when in the manga his knowledge of her was limited to his perception that she was awkward and quiet.
The crap from this film is not coincident with the manga. It spits in the face of what was established because Pierrot can't separate their hormones from their wretched skulls. When events from the film are contradictory to the manga, the order of importance dictates that the manga's explanation comes first, regardless of Pierrot's petty attempt at claiming their anime is important to the story Kishi established.
Yes, and that was shown with how they advertised the movie and their numerous frauds hiding that this is an NH movie. Only revealing the movie to be focused on NH AFTER people bought the tickets.
If they had this so-called researchers don't you think they would have known that Hinata has the biggest number of hate threads regardless of her being a side character? Especially, they should've known that a lot of Hinata hate comes from SP's over glorifying of Hinata. No, they don't know or they do but don't care.
Resentment felt towards Hinata only escalated into a raging wildefire once the actual contents of the film were revealed and people came back from the theatres realising that they had been duped by false advertisement. General opinion seemed fairly modest before the 24th of November and 6th of December came around. In fact, from your own account, it seems that most people were more interested in vilifying Sakura for her lack of acknowledgement towards Naruto in the last two chapters.
The supicious placement of Hinata in the promotional content may have caught the eyes of the Japanese fandom, but how many of them could have anticipated that it was to be her role to butcher the sanctity of the characters we know for her own benefit? It was assumed that her role would be greater since Toneri was established as a villain interested in the Hyuga - not that "Hyuga" would mean Hinata alone while her emptyheaded pining for Naruto takes centre stage.
They knew Neji was a popular character and people felt sympathy for him. Yet that didn't stop them from creating interviews saying he only died as a Cupid or writing blogs that Neji sexually harassed Hinata and only wanted to touch her boobs. They brought opposite effects. What did they do? Create more 
Words coming from the studio that is already reaping the benefits from their underhanded tactics. If the backlash is severe enough, they may just distance themselves from the comments given by two men to preserve whatever dignity they have left before it's destroyed in their next scheme, after which they will attempt to protect themselves again and the cycle will go on for the 12 movies that are rumoured to be in development.
Frankly, I never cared for Neji myself. To me he was just a Hyuga equivalent to the Sasuke archetype with an added quirk of being a loyalist dog to Konoha who thought he and his clan were better than they actually are (this is prior to the bastardisation that takes place in The Last). Neji's legitimacy as an important player in the game dried up sometime at the end of Part 1.
You'll have to forgive me because I don't recall Neji's face being in the last popularity cover that Kishi drew. It could just be a memory lapse brought on by my utter contempt for Kishi and Naruto though.
You give too much credit to these guys. You can see that the more the fans oppose the more they feel the need to force-feed us to convince us how the movie and the ending was 'great'. If they were smart, they would realize that force-feeding gives an opposite effect. They're not, and thats the problem. You can see this by how they delete one-star reviews and create five-star reviews in it's place that only contain words of FANTASTIC, GREAT, BEST MOVIE EVER!
The fact that they feel it important enough to go out of their way to bribe for fradulent reviews and automated machines is a clear indicator for all of this negative reception actually having an effect on them. It's perceived as a threat to the benefit of their film. While that may not be the sort of consideration from Pierrot that most of us are hoping for, it's a sign that they are able to recognise us.
If they wanted to keep the fan population they wouldn't have done fraud to fans who loved this manga for years. If they wanted to keep the fans they wouldn't even make Boruto the main character. No they don't understand the fans. They will use the same tactic again and again,
How you think they would make a logical choice baffles me when everything they've done so far is illogical and irrational to the highest caliber.
This is only a thought, but I believe that it's going to take more than just a 2 or 3 second cut of Sasuke to pique the curiousity of fans. If the rumours about Sasuke being the sensei of the Hinata spawn are somehow proven accurate, that may be enough for a percentage of the disenfranchised to reconsider their stance on not watching it.
With a newly reformed Sasuke taking up the mantle of sensei, some might even begin to see him as being a combination of his old personality with the responsibilities, grit, and intelligence of a teacher like Kakashi who he was once likened to. Two popular characters in one!
Such an event wouldn't earn back everyone, of course, but it may just be enough to salvage the studio's reputation if they feed the Sasuke fans (and by extension, Kakashi fans) what they want.