The titular doctor/ninja himself starts out as a low-level version of this, capable of moving at insane speeds and surviving a large number of gunshot wounds (if only barely), but not being particularly strong compared to other characters in the series. Well, except for his punches. He can send an armoured van flying with one of those. (It's also literally stated that he has Super-Strength, but that's largely just a throwaway joke in the first story and a Brick Joke in the last one.)
Buck Godot: Zap Gun for Hire: Buck Godot. For someone over 7 feet tall and easily weighing in at 600 pounds (all muscle actually), he is A LOT faster than he has any business being. Justified in that he's from a high gravity world.
The Dreadful: Jeanne Noelle is fast enough to dodge bullets, and a punch from her can lift a person off the ground straight up. Said punch was delivered to someone with their gun to the back of her head.
Enemy Quest: The Warriors are both incredibly strong and surprisingly swift and agile. Their durability is nothing to sneeze at either, as "During the war, they put on brass armor and charged through hails of bullets."
The Fox Sister: The Kumiho is incredibly quick on her feet but also is able to both take and dish out.
General Goomblast, despite being the largest of the Jager Generals (which is no mean feat), uses a rapier as his weapon of choice. He is very, very, good with it.
Airman Higgs mixes this with Made of Iron. He's shown himself capable of moving fast enough to practically Flash Step from normal perspective, is capable of smashing through Clanks with a single strike, and was capable of outpacing Zola even when she's nigh on overdosing on Psycho Serum.
Bec Noir is able to destroy a universe, is fast enough to surprise John before the battle even starts, and can take hits from Vriska when she was most powerful.
Kill Six Billion Demons: Jagganoth is giant-sized and can level a small town with the side effects of one swing of his sword, but none of that keeps him from also moving around in the blink of an eye.
Ninja Spirit: The Brute is revealed to be like this when he dodges a lightning bolt.
Schlock Mercenary: Sgt. Schlock weighs 500 pounds, and is five times stronger than a boosted human. You need anti-tank weaponry to do more than inconvenience him, and he's the Spokesblob for unnecessary amounts of firepower. He looks slow because his resting form is a rough, grey-green pile that looks like waste products, but with the exception of his eyeballs, Schlock's entire body is made of Grey Goo that can function as muscle tissue and sniffs out other fragments of itself to recombine if he's torn apart. He "runs" by flexing his entire body to bound over the landscape (he also eventually figures out how to use his iconic plasma cannon as a plasma rocket to fly). More than one opponent who thought they were at an advantageous distance has realized too late that "You're faster than you look" when he's suddenly already got them wrapped up in his grip, ready to crush and/or devour them.