Here's a couple of plausible factors:
1. A flash crash is just a huge coin flip -- even if your market making firm has circuit breakers that stop it from making more trades (and successfully kept its position small), if the exchange ends up ripping up trades en masse you may suddenly have a large position that loses you a lot of money
2. Someone screws up an algo [1] and you burn through more than your entire market cap in half an hour
[1] https://www.bloomberg.com/news/articles/2012-08-02/knight-sh...
Agree with you that HFT performance is not correlated with market direction. But given the volume of trades it would imply that many of the trades are occurring on a smaller pool of equity instruments. I'd think that given liquidity constraints and competition that there's a sweet spot in terms of number of stocks that a given strategy is actually efficient on.
So not entirely sure why we consider every trade to be iid - rapid shocks (flash crash), equity specific news etc would affect a number of trades at once changing the 51% probability?
Also does anyone know if the profitability numbers include payments to be a market-maker?
Most likely, though, their profitability % is tuned by edge and risk parameters. They can adjust size, widen out, or tighten up the spread to tune trade frequency and profitability. They are finding a sweet spot between # of trades and profitability.
Source: Worked at Madison Tyler / Virtu for over 4 years, but left before their IPO.