Jumping does not beat all enemies, true but it beats most and again, was the main means of attack in SMB. With Bowser, it was specifically in regards to fire balls since that's all he shoots in SMB where he debuted. With Link, it's often a feature of the Master Sword specifically and also when Link hasn't taken damage.
And yet none translate smartly to Smash. That's the point. They aren't the only important gameplay parts. It's also clearly not that important to Bowser when he's able to breathe streams of fire in mainline games before Smash as well. You're acting like they're so beyond important that it's impossible to ignore them. They're not ignored, they're just not as important as you make them. And no, they don't defeat enough enemies to require it to deal damage. Mario died in one hit too. Should he do so in Smash? No. It's a bad comparison because Mario still jumps in Smash. You also forget his moveset was heavily focused on his Super Mario 64 abilities(coincidentally, same with Bowser in Melee).
Ike's Ragnell has always been able to shoot sword beams along with its sister sword Alondite (Or Ettard in Japan). They didn't even bother to have it be like Radiant Dawn where Ike only uses the animation where he swings the sword into the ground to send the beam, could've easily been added as a little extra disjoint on the likes of jab, usmash and fsmash plus neutral special could've been a sword beam attack. It's a rather distinct feature of the sword since in PoR, the only other swords to attack from long range cast light or wind spells and in RD, the Wind Edge, Storm Sword and Tempest Blade all behave like Ragnell and Alondite.
So all stuff that would hurt the balance of his gameplay? Now I see why it isn't there at all.
Charizard is very clearly a dragon, his typing doesn't matter. Marth's Falchion works on fire dragons, earth dragons, shadow dragons, any kind.
Except he was introduced in Brawl, where his weakness and strengths were solely due to the fact he's a Fire type. Flying wasn't translated to Smash to matter. He isn't even a legitimate Dragon outside of a Final Smash in 4. So no, it does matter. The gameplay directly made sure it mattered. Awful example and a huge stretch. He's not a Dragon in Smash in any official capacity(bar 4's Final Smash), and is just another Monster at best. He's a Fire Lizard, anyway.
PP is a restriction in RPGs so you don't just spam the most powerful attacks just as Captain Toad not jumping is a restriction so you don't beat the levels super easily.
And so beyond key to gameplay that it wouldn't work otherwise. This is not comparable to the other examples. Mario can beat level while ignoring enemies and could just hit the Axe to kill Bowser. The footstool jump is a useful tool, but not required to win the game as much as you think it is. Nor is the sword beams. Etc.
Ganondorf lacks his most noteworthy magic, Dead Man's Volley which he did use in OoT. He's not known for using a sword but they never bothered to further declone him from Captain Falcon by making him use it even a bit. In comparison, Mario got FLUDD which he's not specifically known for and cape to make him more different from Luigi.
For one thing, that's not even Ganondorf's original move. That was used by Agnahim, who apparent is just one of Ganon's potential human forms. It was also used by Phantom Ganon first(and he even uses it more than regular Ganondorf in games). It's not really an iconic move to Ganondorf so much as an iconic move to characters related to the various Ganons at best. It's not that important to him. It'd be nice, but it's used by many characters, some who aren't even literally a form of Ganon.
Agahnim in A Link to the Past
Agahnim's Shadow in Link's Awakening
Phantom Ganon in Ocarina of Time, The Wind Waker and Four Swords Adventures
Ganondorf in Ocarina of Time
Blue Stalfos in Oracle of Ages
Twinrova in the Oracle series
Gouen in Four Swords
Vaati in Four Swords and The Minish Cap
Puppet Zelda in Twilight Princess
Cubus Sisters in Phantom Hourglass
Bilocyte in Skyward Sword
Ghirahim's final fight in Skyward Sword
Yuga Ganon in A Link Between Worlds
Lady Maud in Tri Force Heroes
Tons of times he doesn't use it, and by other ones. It's not iconic to him, like, at all.
My whole original point with my post was to mention that other characters have things they're very well known for that didn't carry over into Smash so I don't see why Captain Toad not jumping would have to carry over. I even mentioned that it could be done but that in order to make up for that, he would need some really good specials to cover platform camping and recovery. I haven't played Treasure Tracker but I have played SM3DW and from what I've read on here, it's the backpack that makes him unable to jump. Toads as a species aren't incapable of jumping. They could even throw some comment out like he lightened his load of his backpack to help him do better in Smash. I find it nearly as pointless to flatout not allow Captain Toad to jump in Smash as it would be to put a limit on the number of times the Pokemon and PK kids can use their specials.
And with tons of beyond bad comparisons, your point doesn't work. So far, the closest one you had was Ragnell at best.