I really didn't like how they implemented (if thats the correct word) the power ups.
I found it really odd that they give you the plasma beam in the early/middle of the game, plasma is suppose to be one of your most powerful weapons in your arsenal and is normally the very last beam upgrade you get because of it, yet it feels like its too early like the developers knew what you would encounter would be very difficult to fight without it even with counter.
Heck Wave beam is the final beam upgrade other than plasma, I guess because if they made wave beam too early you could get almost all missile and other expansions too early or make fights easier because you don't have to stand in front of enemy's they are above or below you through a wall
Also interestingly about some of these weapons upgrades is that some of them are treated as ACTUAL weapon upgrades than just getting a new weapon.
Spin Boost - is a double jump and when you get space jump, Spin Boost just disappears in you inventory.
Diffusion Beam - while you still have it at the end, it gets completely taken over by wave beam because Diffusion explodes on impact and can penetrate through terrain, but wave beam can go through any surface leaving Diffusion obsolete.
Missiles - This was something that Metroid Fusion did and I could forgive it in Fusion because it only had 4 buttons making it difficult to map to select different weapons.
I really didn't like how they just stacked you Missiles together than just as separate where Missiles become Super Missiles, and Super Missiles become Ice Missiles, theres no switching or using your weapons in a conserve way, you just get a better weapon.
I think this was a criticism on Samus Returns with you having you to hold a button and then pressing the touch screen to select Super Missiles, but with 8 buttons and a d-pad they couldn't figure a way to select your missiles?
Grapple Beam - I think Samus Returns handled Grapple Beam very well with free aiming to grab a grapple beam spot and I think Dread is very nice with a button for Grapple Beam and I like you you can use it to grab magnetic walls especially with the E.M.M.I chases, although I really didn't like the Grapple Beam doors.
Every time you use the right of beam or missile to unlock the door it becomes a regular door and can be opened with and weapon, Grapple Beam doors however can only be open with Grapple Beam and doesn't become a regular door making it kind of annoying.
Also on doors I really don't like the doors that require you have use Phantom Cloak to walkthrough certain doors other wise it shuts on you, theres very few of these doors, but I still found it annoying that I had to turn on Phantom Cloak and slowly walk though a door.
An interesting choice for the first time a main story Metroid game is that Ice beam and High Jump Boots are not in the game, I guess it makes since that Ice Beam is gone because there are no more Metroid to freeze and that Spin Boost replaces High Jump since it allows you to double jump.
I also didn't like how they dealt with the orange E.M.M.I (power bombs), I know we had to had to see that Samus's Metroid absorbing powers were evolving, but the E.M.M.I's rooms of hiding and running from them were some of the best things in Dread as the E.M.M.I's were the main thing of the game.
Maybe we could have had one more E.M.M.I room where you run from it and explore like you normally do, get to where the Central Unit is (Eyeball Brain enemies you drain for the Omega Cannon), It uses power bomb to destroy the Central Unit, and then the cutscene happens where Samus drains the E.M.M.I, I feel it could have handled a lot better considering the E.M.M.I, again, were the main thing of the game.
There might be others things I might have to say about Dread, but these were the most noticeable that stuck to me after finishing it.