Any reason why Doc and Mario, especially Mario's, U-throw are in D-tier? They don't get guaranteed setups from them as far as I know, but they do get setups like many other characters who have U-throw setups such as Falco, Fox, and speaking of which... Samus, her U-throw is a set-up throw:
https://smashboards.com/threads/using-upthrow-instead-of-dthrow-for-combos.429508/.
On Ganondorf, Jigglypuff, Villager and ZSS, I don't know if they get anything out of U-throw, but they do 10% which is still good damage and like all throws, can give a positional advantage -- part of me wished ZSS's U-throw was her set-up throw since it would be cool for a flip kick to set up flip kicks. For Jigglypuff in particular, I think all of her throws should be at least C-tier purely because of they do 10%. Compared to Lucina, Marth, and Roy, she doesn't have a U-throw kill or Roy's D-throw set-ups, but in terms of damage, she trumps them. Lucina, Marth, and Roy's other throws don't do much outside of positioning like everyone else, but they're doing half of what Jiggles does.
Okay, for everyone in D-tier plus Little Mac, in terms of damage, it's Wario at 11%, Ganondorf, Jigglypuff, Villager, and ZSS first at 10%; Robin, Samus, and Triple D at 9%; Mii Brawler at 8%, Dr. Mario at 7.84%, Bowser Jr., Little Mac, Mario, and (vanilla) Shulk at 7%; Duck Hunt at 6%, and Mii Swordfighter and Yoshi at 5%. Here is the thing, yes, set-up and kill throws are nice, but at the same time, positional is also nice which is what every throw is capable of. Now, it's already been covered that Dr. Mario, Mario, and Samus have can use their to set-up, not guaranteed setups perhaps, but set-ups nevertheless, so they should really just be in C- or higher depending on what they can do. Everyone else? Looking at it, Ganondorf, Jigglypuff, Villager, Wario, and ZSS do the most damage. They might not get anything from their U-throws, but a free 10% -- 11% for Wario -- and putting your opponent somewhere in the sky forcing them to figure out where to land? Hell yeah. C-tier. 1% less, but Robin and Triple D should be up there too plus Mii Brawler. Maybe the 7% U-throws too including Little Mac who still can at least anti-air and land trap you with Utilt, Up Smash, angled up Side Smash, and Rising Uppercut. Oh, and Shulk can at least use Buster Art to increase the damage and Smash Art to increase its knockback. That leaves the 6% and under... Yeah... They don't KO like Lucina and Marth's 5% U-throws or Roy's 6% U-throw which could have made up for the low damage compared to the others. Yeah...
On the flipside, I'm curious as to why Cloud's U-throw is in B-tier. It does 8.5% total -- Cloud's most damaging throw --, but that's pretty much it. It's a positional throw. Likewise, Captain Falcon doesn't get much from U-throw, except for setting up Uair at low percents, as far as I know. Just does 7% which if we went with the whole, high damage throws should at least be C-tier, he's barely edging it in like Bowser Jr., Little Mac, and Shulk. There's Palutena too who uses D-throw more for set-ups and I don't think her U-throw is a kill throw with that knockback. Questions: do Mega Man and PAC-MAN get much out of U-throw? I can see item set-ups and Mega Man using Uair after it, but that's it to my knowledge.
I think for the purposes of this ranking and for U-throw since different throws have different damage ranges, if the U-throw doesn't kill or set-up, but it does at least 8%, it should be C-tier. That's decent damage and at least positioning. D-tier 7% to 6% and F-tier is 5% and below. Now, if it does KO, then yes, it should be at least C-tier depending on KO percent and perhaps the damage like Lucina, Marth, and Roy's U-throws don't do a lot of damage, but are kill throws nevertheless compared to Mewtwo's high damage and relatively low kill percent which would definitely put it above C-tier which it is at S-tier. Same with set-up U-throws since there are some situational or shaky ones like Fox can use U-throw to set up Uair, but it's not going to be as reliable or "true" unlike Diddy and Ike's U-throw set-ups. So, something like Fox's e.g. Mario and Samus's would be C-tier while something like Diddy and Ike's e.g. Greninja's are higher. Kill set-up U-throws no matter how strict or situational could probably be treated the same like Zelda's is strict, but it's still a kill set-up and her U-throw alone does 11%, so that would have already placed it at C-tier. For throws that do both like Falco and Greninja's, C-tier at the least. Maybe B-tier since they would be the most versatile throws -- throws that function as both kills and set-ups.
Also, fun fact: Fox's U-throw is the lowest damaging set-up throw in the game. If none of the lasers hit, then it only does 2%, but that means nothing when his Uair does 16%. Next to Fox is Falco's where if the laser doesn't hit, then it's a 4% set-up throw. Followed by Falco would be Diddy's 5% U-throw. Huh... Zelda's would be the highest damaging then... 11% from the throw and 17% from her Uair.