Let us start with the Elder Wand. I'll start with this quote; Ollivander: "Oh yes, yes, it is perfectly possible to trace the wand's course through history. There are gaps, of course, and long ones, where it vanishes from view, temporarily lost or hidden; but it always resurfaces. It has certain identifying characteristics that those who are learned in wandlore recognize...Whether it needs to pass by murder, I do not know. Its history is bloody, but that may be simply due to the fact that it is such a desirable object, and arouses such passions in wizards. Immensely powerful, dangerous in the wrong hands, and an object of incredible fascination to all of us who study the power of wands."
Within Disney there are many powerful wizards all of whom use wands which fit the description of the Elder Wand. Disney's Fantasia is based in part on the German poem Der Zauberlehrling (The Sorcerer's Apprentice). The unnamed Sorcerer (nicked named Yen Sid ~Disney backwards~ in Fantasia) is described as having a powerful wand and hat. And while the original poem doesn't give a description of the sorcerer, Disney gives a rather interesting visual. Yen Sid is shown in several variants and rehashes of the Fantasia story as having either a wand with a star on it or more interestingly a paint brush/writing brush which looks similar to a wand. The wand is simple in the original animation but is still considered quite powerful. Let us also consider that Fantasia is one of the earliest Disney films, only predated by Snow White and Pinocchio. If we treat the Disney Film timeline as a literal historical timeline in reference to the stories as they progressed our unnamed Sorcerer (Yen Sid) may very well be Antioch Peverel before his rather untimely death (if in fact that aspect of the story of the three brothers is accurate).
The paintbrush style of this wand as described by Disney also neatly fits into the description of the Elder Wand, which according to Harry Potter Wikia "The Elder Wand is ancient and made of elder wood. It is fifteen inches long and has a Thestral tail-hair core, which is "a tricky substance that only wizards that mastered death can control.". The Elder Wand, as well as being more powerful than other wands, is noticeably unique from other wands in its appearance, particularly because it bears carvings that resemble clusters of elderberries running down its length." Its core is Thestral hair, which remains invisible (arguably) to anyone who hasn't seen death. It is possible the paint brush stylings we see from Disney are in fact extended wisps of the thestral hair core long since lost from use.
Let us also consider that the three Brothers are some of the earliest Wizards in the legends of the Wizarding World. So old and vaguely referenced that they may very well predate Merlin. Which leads credence to this next part. Merlin in the Disney universe is described as being quite powerful and uses a wand made of Elder Wood. Even more interesting is the fact that one of his companions in the Disney version is in fact a (talking) owl whom he uses to send messages amongst other things.
We know that Merlin is a rather revered historical figure in the Harry Potter Universe.
Throughout the Disney's Sword and the Stone we see Merlin conjure and charm the world around him and we even encounter an Metamorphmagus in the form of the Mad Madam Mim who turns into a Pig.
Along the same storyline at some point Disney's Merlin loses his wand and takes on an Apprentice named Balthazar Blake who searches for Merlin's descendants. In Disney's 2010 film The Sorcerer's Apprentice he finds said descendent in the US. Now, isn't it strange that in the Harry Potter Universe there are no US Wizarding schools? Why would that be exactly? More importantly why would a descendent of Merlin be in the US (the so called Prime Merlinean)?
Well it might have to do with another set of witches in the Disney universe which may also be referenced in the Harry Potter Universe. The Sanderson Sisters were an allusion to the Weird Sisters from MacBeth and were the three witch sisters] brought back to life in the 1993 film Hocus-Pocus. Their magic included an almost cliche line of "Bubble bubble toil and trouble" lifted from MacBeth. This same line is referenced by the Frog Choir in Harry Potter and the Prisoner of Azkaban.
In the story of Hocus-Pocus the three witches were hanged in Salem in 1693, but not before Winifred casts a spell that would allow a virgin to bring them back to life. This is after the three sisters took part in the murder of Emily by a means in which they sucked the life force from her to elongate their own lives. These three witches seemingly created a horocrux in much the same way that Voldemort did in Harry Potter. It is also witches like these that encompassed the American witch hunts and sent most of the magic users into hiding in the US. Where even schools of witchcraft and wizardry weren't erected. The wizarding families of the Americas were all but wiped out and their traditions lost.
Going back to tracking the Elder Wand. At some point after Merlin lost the Elder Wand (possibly during his long slumber as per the original mythos) it reappears in the Harry Potter Universe. Emeric the Evil came into possession of the Elder Wand and used it to terrorize Wales and England. This would have been during the period of the Dark Ages (between 1000 AD and 1500 AD) Egbert the Egregious eventually wins the Elder Wand and then to Godelot. Godelot writes a tomb called Magick Moste Evil, which arguably falls into the Morganists from the 2010 The Sorcerer's Apprentice, who use the spells found within to revive dead followers of Morgana.
Godelot dies at the hands of his own son Hereward. What happens to Hereward is unknown, but between the time of Hereward and the next known Harry Potter Universe character to have it, Barnabas Deverill (an 18th century Wizard) the whereabouts of the Elder Wand are unknown. Godelot lived in the Dark Ages still. However, the wand's disappearance maybe explained by another Disney story.
Beauty and the Beast is centered on a rather misogynistic pairing of Belle and the Beast. The Prince/Beast is cursed by a rather powerful enchantress who comes to him in the form of an old hag to test his empathy. When he failed she turned him into the beast and the rest of his servants into the various items in the castle. Her strong curses resemble the first werewolf curse, and the turning of the staff into things like cups and dishes is reminiscent of transfiguration. This enchantress is described as using a very powerful wand and being capable of teleporting at will (could that be Appiration?). This same Enchantress maybe the origin of the Enchanted lands around the "enchanted" fountain in the Harry Potter story "The Fountain of Fair Fortune". Many of the lessons seemingly learned in Beauty and the Beast are repeated in part in this story which appears in "The Tales of Beedle the Bard"
Beauty and the Beast is set in the late 17th century to the early 18th century which gives us a temporal correlation between the Enchantress and Barnabas. The Enchantress may have been, in fact, in her true form when she showed the Prince/Beast the old hag form she took on to test him. After this last lesson for the Prince she dies of old age. Barnabas comes across the wand by one means or another after the fact (we know little of him) but it is possible he was witness to her magic and cursing of the Prince. He'd later use the wand to terrorize others only to be killed by Loxias. Loxias would deem the Elder Wand the "Deathstick" and killed many wizards before he too was vanquished. By whom he was vanquished is actually of historical debate. From here on we really don't know what happened to the Elder wand up until Gellert Grindelwald stole it.
At some point Mykew Gregorovitch, the famed wandmaker, came into its possession. And for a few decades he attempted to replicate the wand's capabilities only for it to be stolen from him by Gellert Grindelwald. From there the story is known.
Yet the plot thickens. Delving into Once Upon a Time (the TV series) we learn that all of these fairy tales are actually alternate realities of sorts and written out by Authors with a magic pen and ink. Storybrook exists as an invisible town inaccessible by normal people (currently). Even a magic wand from the Fairy Godmother makes an appearance. This begs a question, what if the Disney Universe is really an extension of the Harry Potter Universe instead of the other way around? This could explain to a degree how the Elder Wand has changed hands so often and without explanation, or even possibly, conflicting stories.
Going all the way back to Yen Sid/Antioch, it is possible that this powerful wizard (as Dumbledore suggested) is in fact the creator of the wand and not Death as the fable goes. Knowing the power of the wand he hid it in the pages of a book (in a similar way that Voldemort hid his soul inside of journal as a horocrux). Only exceptional wizards could gain access to it. This powerful wand then permeated throughout the pages of this book granting access to those who read it and wrote in them authorship and therein creating an entirely different reality made up of the stories written down by different authors?
The Elder Wand as used by Dumbledore not the true Elder Wand after all, but a shadow of the original, a copy, passed along and transited from fairytale world (as it is returned through various forces and events) and back into the magical real world in which the Wizarding World and Storybrook exist.
Whenever a copy is broken in this real world, it appears again in the fairytale world as another copy in another form. The real wand shifting with the times to reflect writing utensils, first as a brush and then a quill and finally a fountain pen.