Both clover types have it's own windrow - clover windrow. You might have a mod conflict (or if the problem is just visually, but in a trailer/baler it's clover and not grass, then Max HeighTypes by Map mod might cause this visual glitch).
About other mods with tons of new fillTypes, I have no idea. The script on my map gives you about 1024 fillTypes in total. Try and see.