I actually love the idea of 'no heroes or villains' a story where on a moment to moment analysis the 'villain' shifts to be seen as someone else.
Sometimes a character who is written as a hero is the villain upon hindsight... and that is a great way to make a powerful twist. And sometimes hindsight is not even needed as it becomes obvious on the spot they are going down a dark road.
My problem with villain MCs is that they need to simultaneously do atrocious things and have good enough motivations for going so far... I usually don't like the villain who goes 'I did for the LoLs!' And they actually did it for the laughs and not some concealed broken part of their psyche... When I see that I usually just sigh and turn away from the series.
The opposite can also happen if you go too dark, as a protagonist with 0 morals can often feel inhumane and 'too edgy for anyone to like' it can create more of a hate view and you hope on every line or page that they will be dead in the next. (I'm looking at you light yagami)
That can usually be thrown out the window on a comedy series. And usually comedy series with villain protagonists are some of my favorites. Megamind, Kuzco, the princess from maoujou de oyasumi are all hilariously self centered and arrogant to the point where it's funny, that way it's fun to watch them be a prick and its also fun to watch them get their comeupins later. (and might even make a turn to good guy depeding on how you want to do it)
If you want some good 'villain protagonists'.
Akemi Homura from Madoka.
Lelouch from Code Geass (even if he falls more on the antihero.)
Nana hiragi from talentless nana
Also... Keep in mind if you have an episodic narrative, it is entirely possible to make one of your characters (even one of the 'good guys') into a villain for an episode, and it can be an amazing story telling tool... Maybe that character has a particularly bad trait that he needs to grow out off, and usually having a 'I fucked up too much' moment is a great catalyst for change.
Though I can't say much on this particular type of twist without spoiling some stuff from my own story ^^