Because for a lot of people in a lot of countries VOC was an oppressive regime. Sure, times were different, but these days you would put them into some sort of crimes against humanity tribunal. They caused a lot of suffering, so in a lot of places using that logo is not politically correct at all.
Crazy fact I just learned: The V.O.C. actually still exists as the Republic of Indonesia. Unfortunately at the moment it's not very common to put rulers of sovereign nations on humanity tribunals, regardless of the extent of their misdeeds.
I wasn't talking about punishing them for deeds in the past. Anyway, punishing heads of state of democratic countries is a bit weird anyway. We're not punishing Bush or Blair for the mess in Iraq either.