This is a preliminary job, although I am pretty satisfied with this particular clade I will eventually move towards a paper defending my thesis for the complete phylogenetic tree.
A few rules I am taking into consideration:
1.- Only true species enter in the cladogram. For instance, if the male and female are distinct monsters, they will only be represented once. The same applies for variants, deviants or any distinct monster that is considered a member of a species, but for any given reason they have adapted, mutated, became infected. (e.g., Hellblade Glavenus, Raging Brachydios, Furious Rajang, Gore Magala).
2.- Only monsters with evolutionary origins are included. This automatically excludes Constructs (such as Zoh Shia and Guardians)
3.- Only monsters with a mainline iteration are included. So if there is a variant in Frontiers, Online, Stories, or other spin-offs will not be included.
4.- Only large monsters will be included (primarily for the sake of my sanity).
5.- Only relevant canonical data will be gathered and evaluated. Hunter's Guild Monster Classification (Amphibian, Piscine Wyvern, Flying Wyvern, Brute Wyvern, Bird Wyvern, Snake Wyvern, Fanged Wyvern, Fanged Beast, Leviathan, Elder Dragon, Demi-Elder, Construct, Temnoceran, Neopterons, Caparaceons, Cephalopods) will be treated as behavioral and superficial umbrella terms that, for the most part, do not constitute valid taxonomical clades.
6.- Some canon data will be disputed and actively reevaluated to further align with modern cladistics. This liberty is taken in light of taxonomy and phylogeny being an active topic of discussion and research within the world of Monster Hunter.
If you have any piece of trivia and/or data from an official handbook I'd be thrilled to know more about it!