It would be nice if the respec removed all skills ( even the skills a class starts with ).
#Skill respec to remove all skills
pliant sluice
chilly wraith
Adding to this my opinion
Builds which run primarily non-innate skills have an inherent downside of getting the upgrade pool cluttered with useless (to you) trash, even more than it already is.
This obviously reduces the overall power of the build, but more importantly completely whiffing an upgrade orb feels incredibly bad.
Respec removing all skills would be the optimal solution. It's fine that they're initially learned on character creation so newcomers don't go for a run without any skills and then feel sad, but once someone presses the Respec button it should be clear that they know skills exist and they can be allocated.
lost flower
I would like to add that a complete respec should also remove the combo counter. I'm tempted to remake characters without the combo counter as it's somewhat useless, I feel, and waters down your upgrade options.
jaunty cradle
protip: you can also skip combo orb 
like, just never pick it up oh kek above poster actually said similar, just shows there is some design issue in the game (or minmaxxers being minmaxxers)