Not really, no. All of the contradictions I listed have nothing to do with a change in medium of the work. They are instead just arbitrary changes.
Arbitrary because of the changes in the media and Nasu wanting to make it more clear in comparison to the Visual Novel format. This was already stated before and it's not even the first time done by an animation studio.
They aren't small tho? Did you even actually read the whole goddamn list I made?
I have read that list and those ARE very much arbitrary...
Especially since most of those are either combat changes(Either showing off the power of a certain Servant, Kuzuki getting stronger across his entire body so it comes off less weird he can even fight Saber like he does), done for the sake of the characterization(Gilgamesh actually IS the type of person who would pull out Ea just to show off, the Grail Arm attacking him was done because it was looking for Magical Energy and not only do Servants have it by the bucketload, Gilgamesh is basically a bucketload in comparison to other Servants as was established in Heaven's Feel) or is done simply due to the action scene(Invisible Air being able to damage Heracles 3 times is just there for the hell of it but he only died due to an Excalibur Blast at the end of the day in it's sole usage, him dying to Caladbolg in the Anime was done due to that extra damage that also wasn't present in the VN, which is something Nasu stated himself as to balance the difference).
Ultimately, it's arbitrary as fuck because we already know that there are virtual infinite possibilities/timelines happening between each QTL which is the entire point of Hollow Axtraxia forcing them ALL to be true(Even bringing up scenarios which we never see happen in any continuity), that would include the anime and manga.
So pointing out that there are loads of differences between the VN and the Anime and the Manga is pointless because that's how Nasu set it up.
Even the Manga of Strange Fake and Fate Zero follows the same principle despite following the LN to an absurd extent than most other adaptations.