Ouch - I don't like that setup at all. Negative categories discourage using guys who play. Usually you want to use the 2-start weeks, not avoid them! But in this format, K/W are positive cumulative categories, but BB/H are negative ones, and with wins being so fluky, you'd have to consider benching a mediocre starter on a 2-start week!
For relievers, basically guys who get saves don't get holds, and vice-versa, while wins are especially fluky from the bullpen. So again you've got effectively just 2 positive cumulative categories (K and either saves/holds) offset by the 2 negative ones.
I'd say ditch the negative categories entirely: WHIP already punishes people who give up lots of H and BB. If you have to keep the negative categories, add IP to offset the impact.
Heck, while I'm in a long-time traditional 4x4 league, I think that format is not optimal because in pitching the two cumulative categories are negatively correlated (guys who get wins don't get saves, and vice-versa), so when a good pitcher goes down in a deep league, you're often better off not replacing him than risking hurting your WHIP/ERA. In this format, the decision is even clearer.