Corruption in the education system. Appalling. Can't talk about corruption in business, because I haven't been involved in any yet.

In fact everything I don't like about Russia probably relates to this one concept - 'trust'.

I agree about registration and visa bureaucracy in general - in particular, the fact that you have to register in every city you visit (well not exactly but anyway).
Also passport control at Sheremetyevo-2 - otherwise known as the 12th circle of hell.

There are plenty of other things but they're probably just niggles.