The various strange stats that quarks are capable of seem like worthy rewards/punishments/occurrences orthogonal to any human concept of advantage or disadvantage for characters that sufficiently break the local reality.
The only real problem is that while things like ‘isospin’ aren’t at much risk of confusion with properties that macroscale objects normally possess; ‘charm’, ‘bottomness’, and ‘strangeness’ might well be.
(More generally, given the art style is very retro-console, the right sort of weird bugs and exploits are very thematically appropriate. Having your GPU driver crash is not the Nintendo Experience; but things stored as 8-bit values that can be comparatively easily overflowed in real-world play, PRNGs simple enough to allow luck manipulation, etc. are definitely part of the flavor for things of that era.)
